Index _ | A | B | C | D | E | F | G | H | I | J | K | L | M | N | O | P | Q | R | S | T | U | V | W | X | Y | Z _ __and__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __array__() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) __contains__() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.sdk_.constants_.IMAGE_MODE class method) (phenotypic.sdk_.constants_.IMAGE_TYPES class method) __copy__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __deepcopy__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __del__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) __delitem__() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) __dir__() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) __eq__() (phenotypic.Image method) __get_pydantic_json_schema__() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) __getitem__() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) (phenotypic.Image method) (phenotypic.sdk_.constants_.IMAGE_MODE class method) (phenotypic.sdk_.constants_.IMAGE_TYPES class method) __getstate__() (phenotypic.sdk_.LazyWidgetMixin method) __hash__() (phenotypic.Image method) __iand__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __init__() (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor method) (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.GridImage method) (phenotypic.Image method) (phenotypic.ImagePipeline method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.HDF method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.JournalStudyStore method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningEngine method) (phenotypic.tune.TuningSpec method) __init_subclass__() (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) __invert__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __ior__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __iter__() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.constants_.IMAGE_MODE class method) (phenotypic.sdk_.constants_.IMAGE_TYPES class method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __ixor__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __len__() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) (phenotypic.sdk_.constants_.IMAGE_MODE class method) (phenotypic.sdk_.constants_.IMAGE_TYPES class method) __new_member__() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) __or__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) __pretty__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __pydantic_init_subclass__() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) __pydantic_on_complete__() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) __reduce__() (phenotypic.sdk_.exceptions_.OperationFailedError method) __repr__() (phenotypic.Image method) __repr_name__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __repr_recursion__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __rich_repr__() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) __setitem__() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) __str__() (phenotypic.abc_.MeasurementInfo method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.Image method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) __xor__() (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) _accessor_property_name (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale attribute) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB attribute) _apply_to_single_image() (phenotypic.abc_.ImageOperation method) _cielab (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) _DagBuilderScope (class in phenotypic.gui.builder._state) _DagBuilderState (class in phenotypic.gui.builder._state) _hsv (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) _logger (phenotypic.abc_.BaseOperation attribute) _make_footprint() (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ObjectRefiner method) _operate() (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) _parent_image (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor attribute) _root_image (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor attribute) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap attribute) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask attribute) _seed_input_image() (in module phenotypic.gui.builder._state) _tracemalloc_started (phenotypic.abc_.BaseOperation attribute) _xy (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) _xyz (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) _xyz_d65 (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor attribute) A A_STAR_GEOMEDIAN (phenotypic.schema.ColorLab attribute) A_STAR_MEDOID (phenotypic.schema.ColorLab attribute) ABOVE_DISTANCE (phenotypic.schema.NEIGHBOR_DIST attribute) ABOVE_NEIGHBOR_OBJ_LABEL (phenotypic.schema.NEIGHBOR_DIST attribute) absolute_drop (phenotypic.tune.GeneralizationReport attribute) ABSOLUTE_FLOOR (phenotypic.grid.CenteredAutoGridFinder attribute) ACCEPTED_FILE_EXTENSIONS (phenotypic.sdk_.constants_.IO attribute) accessor ACKNOWLEDGEMENTS (phenotypic.schema.STUDY_METADATA attribute) ACQUISITION_METADATA (class in phenotypic.schema) ACTIVE_CHUNKS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) add_image_layer() (in module phenotypic.sdk_.napari_) add_note() (phenotypic.grid.CenteredAutoGridFinderFallbackWarning method) (phenotypic.sdk_.exceptions_.ArrayKeyValueShapeMismatchError method) (phenotypic.sdk_.exceptions_.DataIntegrityError method) (phenotypic.sdk_.exceptions_.EmptyImageError method) (phenotypic.sdk_.exceptions_.GrayscaleOutOfRangeError method) (phenotypic.sdk_.exceptions_.GridImageInputError method) (phenotypic.sdk_.exceptions_.IllegalAssignmentError method) (phenotypic.sdk_.exceptions_.IllegalElementAssignmentError method) (phenotypic.sdk_.exceptions_.ImageOperationError method) (phenotypic.sdk_.exceptions_.ImmutableComponentError method) (phenotypic.sdk_.exceptions_.InputShapeMismatchError method) (phenotypic.sdk_.exceptions_.InterfaceError method) (phenotypic.sdk_.exceptions_.InvalidHsvSchemaError method) (phenotypic.sdk_.exceptions_.InvalidMapValueError method) (phenotypic.sdk_.exceptions_.InvalidMaskScalarValueError method) (phenotypic.sdk_.exceptions_.InvalidMaskValueError method) (phenotypic.sdk_.exceptions_.InvalidShapeError method) (phenotypic.sdk_.exceptions_.MetadataKeySpacesError method) (phenotypic.sdk_.exceptions_.MetadataKeyValueError method) (phenotypic.sdk_.exceptions_.MetadataValueNonScalarError method) (phenotypic.sdk_.exceptions_.NoArrayError method) (phenotypic.sdk_.exceptions_.NoComponentError method) (phenotypic.sdk_.exceptions_.NoImageDataError method) (phenotypic.sdk_.exceptions_.NoObjectsError method) (phenotypic.sdk_.exceptions_.NoOutputError method) (phenotypic.sdk_.exceptions_.ObjectNotFoundError method) (phenotypic.sdk_.exceptions_.OperationFailedError method) (phenotypic.sdk_.exceptions_.OperationIntegrityError method) (phenotypic.sdk_.exceptions_.OutputValueError method) (phenotypic.sdk_.exceptions_.PhenoTypicError method) (phenotypic.sdk_.exceptions_.UnknownError method) (phenotypic.sdk_.exceptions_.UnsupportedFileTypeError method) (phenotypic.sdk_.exceptions_.UnsupportedImageFormat method) (phenotypic.sdk_.exceptions_.UuidAssignmentError method) (phenotypic.sdk_.exceptions_.UUIDReassignmentError method) agg_func (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute) all_headers() (phenotypic.schema.ColorComposition class method) ALLELE (phenotypic.schema.GENETIC_METADATA attribute) alpha (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) AMBIGUOUS_FORMATS (phenotypic.sdk_.constants_.IMAGE_MODE attribute) amount (phenotypic.enhance.SharpenEdgeGauss attribute) ANALYSIS (phenotypic.sdk_.ModulePath attribute) ANALYSIS_DATA_VERSION (phenotypic.sdk_.DashboardManifestKey attribute) analysis_full_parquet_path() (in module phenotypic.sdk_) analysis_html_path() (in module phenotypic.sdk_) analysis_manifest_path() (in module phenotypic.sdk_) analysis_scatter_json_path() (in module phenotypic.sdk_) AnalysisArtifactPaths (class in phenotypic.sdk_) AnalysisPluginRegistry (class in phenotypic.sdk_.register) analyze() (phenotypic.abc_.PrefabPipeline method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) ANALYZED_DATA (phenotypic.schema.REMBI_MODULE attribute) ANGULAR_SECOND_MOMENT (phenotypic.schema.TEXTURE attribute) ANTIBIOTIC (phenotypic.schema.CONDITION_METADATA attribute) append() (phenotypic.tune.JournalStudyStore method) append_rst_to_doc() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) apply() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method), [1] (phenotypic.abc_.ImageOperation method), [1] (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method), [1] (phenotypic.abc_.ObjectRefiner method), [1] (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.GridApply method) (phenotypic.ImagePipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) apply_and_measure() (phenotypic.abc_.PrefabPipeline method) (phenotypic.ImagePipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) apply_napari() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) apply_with_intermediates() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) AREA (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) args (phenotypic.grid.CenteredAutoGridFinderFallbackWarning attribute) (phenotypic.sdk_.exceptions_.ArrayKeyValueShapeMismatchError attribute) (phenotypic.sdk_.exceptions_.DataIntegrityError attribute) (phenotypic.sdk_.exceptions_.EmptyImageError attribute) (phenotypic.sdk_.exceptions_.GrayscaleOutOfRangeError attribute) (phenotypic.sdk_.exceptions_.GridImageInputError attribute) (phenotypic.sdk_.exceptions_.IllegalAssignmentError attribute) (phenotypic.sdk_.exceptions_.IllegalElementAssignmentError attribute) (phenotypic.sdk_.exceptions_.ImageOperationError attribute) (phenotypic.sdk_.exceptions_.ImmutableComponentError attribute) (phenotypic.sdk_.exceptions_.InputShapeMismatchError attribute) (phenotypic.sdk_.exceptions_.InterfaceError attribute) (phenotypic.sdk_.exceptions_.InvalidHsvSchemaError attribute) (phenotypic.sdk_.exceptions_.InvalidMapValueError attribute) (phenotypic.sdk_.exceptions_.InvalidMaskScalarValueError attribute) (phenotypic.sdk_.exceptions_.InvalidMaskValueError attribute) (phenotypic.sdk_.exceptions_.InvalidShapeError attribute) (phenotypic.sdk_.exceptions_.MetadataKeySpacesError attribute) (phenotypic.sdk_.exceptions_.MetadataKeyValueError attribute) (phenotypic.sdk_.exceptions_.MetadataValueNonScalarError attribute) (phenotypic.sdk_.exceptions_.NoArrayError attribute) (phenotypic.sdk_.exceptions_.NoComponentError attribute) (phenotypic.sdk_.exceptions_.NoImageDataError attribute) (phenotypic.sdk_.exceptions_.NoObjectsError attribute) (phenotypic.sdk_.exceptions_.NoOutputError attribute) (phenotypic.sdk_.exceptions_.ObjectNotFoundError attribute) (phenotypic.sdk_.exceptions_.OperationFailedError attribute) (phenotypic.sdk_.exceptions_.OperationIntegrityError attribute) (phenotypic.sdk_.exceptions_.OutputValueError attribute) (phenotypic.sdk_.exceptions_.PhenoTypicError attribute) (phenotypic.sdk_.exceptions_.UnknownError attribute) (phenotypic.sdk_.exceptions_.UnsupportedFileTypeError attribute) (phenotypic.sdk_.exceptions_.UnsupportedImageFormat attribute) (phenotypic.sdk_.exceptions_.UuidAssignmentError attribute) (phenotypic.sdk_.exceptions_.UUIDReassignmentError attribute) ARRAY_DENSITY (phenotypic.schema.PLATE_METADATA attribute) array_name (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) ArrayKeyValueShapeMismatchError as_coo() (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) as_csc() (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) assert_swmr_on() (phenotypic.sdk_.HDF static method) ATMOSPHERE (phenotypic.schema.CULTURE_METADATA attribute) atomic_write_bytes() (in module phenotypic.sdk_) atomic_write_json() (in module phenotypic.sdk_) atomic_write_parquet() (in module phenotypic.sdk_) atomic_write_text() (in module phenotypic.sdk_) atomic_write_with_writer() (in module phenotypic.sdk_) AUTHOR (phenotypic.schema.STUDY_METADATA attribute) AutoGridFinder (class in phenotypic.grid) availability() (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) available() (phenotypic.sdk_.register.AnalysisPluginRegistry class method) (phenotypic.sdk_.register.BaseRegistry class method) available_analysis_plugins() (in module phenotypic.sdk_.register) available_names() (phenotypic.tune.score.GroundTruthMasks method) axis (phenotypic.correction.GridAligner attribute) (phenotypic.refine.RemoveGridOutliers attribute) B B_STAR_GEOMEDIAN (phenotypic.schema.ColorLab attribute) B_STAR_MEDOID (phenotypic.schema.ColorLab attribute) BACKGROUND (phenotypic.schema.GENETIC_METADATA attribute) background_estimate (phenotypic.util.BackgroundMetrics attribute) BACKGROUND_NOISE (phenotypic.schema.ErrorCategory attribute) background_subtractor (phenotypic.detect.TwoKFilamentousDetector attribute) BackgroundMetrics (class in phenotypic.util) BackgroundSubtraction (class in phenotypic.abc_) BARCODE (phenotypic.schema.SAMPLE_METADATA attribute) BASE (phenotypic.sdk_.constants_.IMAGE_TYPES attribute) BaseOperation (class in phenotypic.abc_) BaseRegistry (class in phenotypic.sdk_.register) BATCH (phenotypic.schema.PLATE_METADATA attribute) BayesShrinkCorrector (class in phenotypic.correction) BayesShrinkEnhancer (class in phenotypic.enhance) BBOX (class in phenotypic.schema) BBOX_AREA (phenotypic.schema.SHAPE attribute) beamwidth_px (phenotypic.detect.FilFinderDetector attribute) beehive_threshold (phenotypic.refine.TrimAsymmetry attribute) benchmark (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute), [1] (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) benchmark_results() (phenotypic.abc_.PrefabPipeline method) (phenotypic.ImagePipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) best() (phenotypic.tune.JournalStudyStore method) best_params_path() (in module phenotypic.sdk_) best_pipeline() (phenotypic.tune.TuningEngine method) best_pipeline_path() (in module phenotypic.sdk_) beta (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) BETA (phenotypic.schema.LOG_GROWTH_MODEL attribute) BGR (phenotypic.sdk_.constants_.IMAGE_MODE attribute) BGRA (phenotypic.sdk_.constants_.IMAGE_MODE attribute) bio_desc (phenotypic.abc_.MeasurementInfo attribute), [1] (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute), [1] (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) BIO_REPLICATE (phenotypic.schema.SAMPLE_METADATA attribute) BIOSAMPLE (phenotypic.schema.REMBI_MODULE attribute) birth_cells (phenotypic.analysis.PersistencePairsResult attribute), [1] birth_values (phenotypic.analysis.PersistencePairsResult attribute), [1] BIT_DEPTH (phenotypic.schema.METADATA attribute) bit_depth (phenotypic.util.ImageMetricsCalculator attribute) (phenotypic.util.ImageMetricsCalculator property) BLACK_PCT (phenotypic.schema.ColorComposition attribute) black_ridges (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeSato attribute) blend (phenotypic.tune.score.CompositeScorer attribute) block_id (phenotypic.gui.builder._state.BlockNode attribute), [1] (phenotypic.gui.builder._validation.Issue attribute), [1] block_size (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) BlockNode (class in phenotypic.gui.builder._state) blocks (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] BLUE_PCT (phenotypic.schema.ColorComposition attribute) BlurGauss (class in phenotypic.enhance) bm3d_block_size (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) bm3d_norm (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) bm3d_sigma (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) bm3d_stage_arg (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) body (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) border_margin_px (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) border_remover_size (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) border_size (phenotypic.refine.RemoveBorderObjects attribute) bottom (phenotypic.correction.CropImage attribute) (phenotypic.correction.PadImage attribute) BoundFigures (class in phenotypic.abc_.plotting) bounds (phenotypic.abc_.plotting.Control attribute) bounds_error_message (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) branch_base (phenotypic.detect.TwoKFilamentousDetector attribute) branch_threshold_px (phenotypic.detect.FilFinderDetector attribute) breadcrumb (phenotypic.gui.builder._state._DagBuilderState attribute), [1] BROWN_PCT (phenotypic.schema.ColorComposition attribute) Budget (class in phenotypic.tune) budget (phenotypic.tune.TuningSpec attribute) build() (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) build_pipeline() (in module phenotypic.tune) build_reduced_space() (in module phenotypic.tune) BundleLayout (class in phenotypic.sdk_) by_module() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) bytes_fingerprint() (in module phenotypic.sdk_) C C (phenotypic.enhance.StructureSmoothing attribute) calculate_optimal_array_chunks() (in module phenotypic.sdk_.slurm) calibration_score (phenotypic.tune.GeneralizationReport attribute) calibration_stability (phenotypic.tune.GeneralizationReport attribute) camera_make (phenotypic.correction.CaptureMetadata attribute), [1] camera_model (phenotypic.correction.CaptureMetadata attribute), [1] cand_thresh (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) CannyDetector (class in phenotypic.detect) canonical_group_key() (in module phenotypic.abc_.plotting) canonical_metadata_order() (in module phenotypic.sdk_) capitalize() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) capture_metadata (phenotypic.correction.ColorCheckerProfile attribute), [1] CaptureMetadata (class in phenotypic.correction) CARBON_SOURCE (phenotypic.schema.CONDITION_METADATA attribute) casefold() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) Categorical (class in phenotypic.tune) categories (phenotypic.tune.TuneSpec attribute) CATEGORY (phenotypic.abc_.MeasurementInfo attribute) (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo attribute) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) category() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) cell_label (phenotypic.analysis.GridOccupancy attribute) center() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) CENTER_CC (phenotypic.schema.BBOX attribute) center_detector (phenotypic.detect.TwoKFilamentousDetector attribute) CENTER_RR (phenotypic.schema.BBOX attribute) CenteredAutoGridFinder (class in phenotypic.grid) CenteredAutoGridFinderFallbackWarning centers (phenotypic.detect.ManualPointDetector attribute) (phenotypic.refine.ManualRefine attribute) CHANNELS_DEFAULT (phenotypic.sdk_.constants_.IMAGE_MODE attribute) ChanVeseDetector (class in phenotypic.detect) check (phenotypic.tune.score.QCScorer attribute) checker_type (phenotypic.correction.ColorCheckerProfile attribute) checkpoint_lock_filename() (in module phenotypic.sdk_) checkpoint_lock_path() (in module phenotypic.sdk_) choices (phenotypic.tune.Categorical attribute) chroma_weight_1 (phenotypic.enhance.FocusEdgeColorPhase attribute) chroma_weight_2 (phenotypic.enhance.FocusEdgeColorPhase attribute) CHUNK_JOB_IDS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) chunk_lock_path() (in module phenotypic.sdk_) chunk_manifest_path() (in module phenotypic.sdk_) chunk_parquet_filename() (in module phenotypic.sdk_) chunk_parquet_path() (in module phenotypic.sdk_) CHUNK_SCRIPTS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) chunk_state_path() (in module phenotypic.sdk_) CHUNKED_FILES (phenotypic.sdk_.ChunkStateKey attribute) ChunkManifestKey (class in phenotypic.sdk_) CHUNKS (phenotypic.sdk_.ChunkManifestKey attribute) chunks_dir() (in module phenotypic.sdk_) ChunkStateKey (class in phenotypic.sdk_) cieX_headers() (phenotypic.schema.ColorXYZ class method) cieY_headers() (phenotypic.schema.ColorXYZ class method) cieZ_headers() (phenotypic.schema.ColorXYZ class method) CIRCULARITY (phenotypic.schema.SHAPE attribute) clahe_clip_limit (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) clahe_kernel_size (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) class_name (phenotypic.gui.builder._state.BlockNode attribute), [1] clear() (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) clear_machine_state() (in module phenotypic.sdk_) clip_limit (phenotypic.enhance.EnhanceLocalContrast attribute) CLONE (phenotypic.schema.SAMPLE_METADATA attribute) close_handle() (phenotypic.sdk_.HDF static method) COEFFICIENT_VARIANCE_INTENSITY (phenotypic.schema.INTENSITY attribute) Coherence (phenotypic.util.QualityScores attribute) coherence_map (phenotypic.util.StructureMetrics attribute) COHERENCE_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COHERENCE_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COHERENCE_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COHERENCE_RADIAL_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COHERENCE_RADIAL_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COHERENCE_RADIAL_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) coherence_window_radius (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) col_edges (phenotypic.grid.ManualGridFinder attribute), [1] COL_INTERVAL_END (phenotypic.schema.GRID attribute) COL_INTERVAL_START (phenotypic.schema.GRID attribute) COL_LINREG_B (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) COL_LINREG_M (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) COL_MAJOR_IDX (phenotypic.schema.GRID attribute) COL_NUM (phenotypic.schema.GRID attribute) collapsed (phenotypic.gui.builder._state.BlockNode attribute), [1] colony color_chroma_min (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) color_include_XYZ (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) color_space (phenotypic.enhance.FocusEdgeColorPhase attribute) color_white_chroma_max (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) ColorAccessor (class in phenotypic._core._image_parts.accessors._color_accessor) ColorCheckerProfile (class in phenotypic.correction) ColorComposition (class in phenotypic.schema) ColorCorrector (class in phenotypic.correction) ColorDenoise (class in phenotypic.correction) ColorHSV (class in phenotypic.schema) ColorLab (class in phenotypic.schema) Colorxy (class in phenotypic.schema) ColorXYZ (class in phenotypic.schema) comments (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) compactness (phenotypic.detect.WatershedDetector attribute) COMPACTNESS (phenotypic.schema.SHAPE attribute) compare() (phenotypic.correction.CaptureMetadata method) COMPLETED (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) COMPLETED_CHUNKS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) completed_count() (phenotypic.tune.JournalStudyStore method) CompositeDetector (class in phenotypic.detect) CompositeEnhance (class in phenotypic.enhance) CompositeScorer (class in phenotypic.tune.score) COMPOUND (phenotypic.schema.CONDITION_METADATA attribute) compute() (phenotypic.abc_.DetectionMode method) compute_all() (phenotypic.util.ImageMetricsCalculator method) compute_background_metrics() (phenotypic.util.ImageMetricsCalculator method) compute_contrast_metrics() (phenotypic.util.ImageMetricsCalculator method) compute_from_rgb() (phenotypic.abc_.DetectionMode method) compute_generalization_gap() (in module phenotypic.tune) compute_local_contrast() (phenotypic.util.ImageMetricsCalculator method) compute_local_variance() (phenotypic.util.ImageMetricsCalculator method) compute_noise_metrics() (phenotypic.util.ImageMetricsCalculator method) compute_param_importance() (in module phenotypic.tune) compute_param_importance_report() (in module phenotypic.tune) compute_psd() (phenotypic.util.ImageMetricsCalculator method) compute_quality_scores() (phenotypic.util.ImageMetricsCalculator method) compute_structure_metrics() (phenotypic.util.ImageMetricsCalculator method) CONCENTRATION (phenotypic.schema.CONDITION_METADATA attribute) CONCENTRATION_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) CONCENTRATION_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) CONCENTRATION_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) CONCENTRATION_RADIAL_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) CONCENTRATION_RADIAL_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) CONCENTRATION_RADIAL_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) COND_REPLICATE (phenotypic.schema.SAMPLE_METADATA attribute) CONDITION_METADATA (class in phenotypic.schema) conditional_on (phenotypic.tune.Knob attribute) cone_to_hsv() (in module phenotypic.util) CONFIG (phenotypic.sdk_.ProcessingStateKey attribute) connect (phenotypic.plotting.PlotColonyMetricOverTime attribute) (phenotypic.plotting.PlotMeasTimeSeries attribute) connectivity (phenotypic.abc_.GpuDetector attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.detect.CannyDetector attribute) (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.WatershedDetector attribute) constant_value (phenotypic.correction.PadImage attribute) ConstantLabels (class in phenotypic.sdk_.constants_) construct() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) CONTRAST (phenotypic.schema.TEXTURE attribute) Contrast (phenotypic.util.QualityScores attribute) ContrastAdjustment (class in phenotypic.abc_) ContrastGamma (class in phenotypic.enhance) ContrastLog (class in phenotypic.enhance) ContrastMetrics (class in phenotypic.util) ContrastSigmoid (class in phenotypic.enhance) ContrastStretching (class in phenotypic.enhance) Control (class in phenotypic.abc_.plotting) CONTROL (phenotypic.schema.SAMPLE_METADATA attribute) controls (phenotypic.abc_.plotting.FigureSpec attribute), [1] convert2ycbcr (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.VisuShrinkCorrector attribute) CONVEX_AREA (phenotypic.schema.SHAPE attribute) CONVEX_DENSITY (phenotypic.schema.INTENSITY attribute) coord1 (phenotypic.detect.ManualGridPointDetector attribute) coord2 (phenotypic.detect.ManualGridPointDetector attribute) copy() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.GridImage method) (phenotypic.Image method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) CORE_AREA (phenotypic.schema.SYMMETRIC_ZONES attribute) CORE_END_RADIUS (phenotypic.schema.SYMMETRIC_ZONES attribute) core_fraction (phenotypic.correction.ColorCheckerProfile attribute) CORE_RADIUS (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) CORRECTED_CAP (phenotypic.schema.EDGE_CORRECTION attribute) correction_matrix (phenotypic.correction.ColorCheckerProfile attribute), [1] (phenotypic.correction.ColorCorrector property) CORRELATION (phenotypic.schema.TEXTURE attribute) correlation_length (phenotypic.util.NoiseMetrics attribute) correlation_threshold (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.RefineBySineFit attribute) count() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) count_check (phenotypic.tune.score.ReferenceFreeScorer attribute) (phenotypic.tune.score.SupervisedScorer attribute) count_free_params() (in module phenotypic.tune) count_term_name (phenotypic.tune.score.ReferenceFreeScorer attribute) (phenotypic.tune.score.SupervisedScorer attribute) CROP (phenotypic.sdk_.constants_.IMAGE_TYPES attribute) CropImage (class in phenotypic.correction) csv (phenotypic.sdk_.AnalysisArtifactPaths attribute) cubical_persistence() (in module phenotypic.analysis) CULTURE_METADATA (class in phenotypic.schema) cumulative_rotation_overlay() (phenotypic.measure.MeasureOrientationZones method) CURATION (class in phenotypic.schema) curation_labels_parquet (phenotypic.sdk_.BundleLayout property) curation_labels_parquet_path() (in module phenotypic.sdk_) current_var (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) custom_categories_json (phenotypic.sdk_.BundleLayout property) custom_categories_json_path() (in module phenotypic.sdk_) cutoff (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.refine.RemoveLowCircularity attribute) cutoff_multiplier (phenotypic.refine.RemoveGridOutliers attribute) CV (phenotypic.schema.QUALITY_SE attribute) cv_deferred (phenotypic.tune.GeneralizationReport attribute) cval (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeSato attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.SubtractGaussian attribute) CYAN_PCT (phenotypic.schema.ColorComposition attribute) D dash() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) dashboard_html_path() (in module phenotypic.sdk_) DashboardManifestKey (class in phenotypic.sdk_) DashboardManifestSlurmInfoKey (class in phenotypic.sdk_) DataIntegrityError DATASET (phenotypic.schema.EXPERIMENT_METADATA attribute) dataset_changed (phenotypic.tune.GeneralizationReport attribute) dataset_hdf_dir() (in module phenotypic.sdk_) dataset_measurements_dir() (in module phenotypic.sdk_) dataset_overlays_dir() (in module phenotypic.sdk_) dataset_results_dir() (in module phenotypic.sdk_) DATASETS (phenotypic.sdk_.ChunkManifestKey attribute) (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) DAY (phenotypic.schema.CULTURE_METADATA attribute) death_cells (phenotypic.analysis.PersistencePairsResult attribute), [1] death_values (phenotypic.analysis.PersistencePairsResult attribute), [1] DEBRIS (phenotypic.schema.ErrorCategory attribute) decode_srgb() (in module phenotypic.sdk_.colourspace) decode_well_position() (in module phenotypic.util) default (phenotypic.abc_.plotting.Control attribute) default_output_dir_name() (in module phenotypic.sdk_) DEFAULT_SCHEMA (phenotypic.sdk_.constants_.IMAGE_MODE attribute) degree (phenotypic.correction.ColorCheckerProfile attribute) (phenotypic.correction.ColorCorrector property) deliverables_base (phenotypic.sdk_.BundleLayout attribute), [1] deliverables_dir() (in module phenotypic.sdk_) delta (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) DELTA (phenotypic.schema.QUALITY_COUNT attribute) DELTA_E2000_MEAN (phenotypic.schema.ColorLab attribute) DELTA_E2000_MEDIAN (phenotypic.schema.ColorLab attribute) DELTA_E2000_P95 (phenotypic.schema.ColorLab attribute) delta_e2000_spread() (in module phenotypic.util) DenoiseBlockMatch (class in phenotypic.correction) DENSE_AREA (phenotypic.schema.SYMMETRIC_ZONES attribute) DENSE_END_RADIUS (phenotypic.schema.SYMMETRIC_ZONES attribute) DENSITY (phenotypic.schema.INTENSITY attribute) derivation_type (phenotypic.abc_.MeasurementInfo attribute) (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute) (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) derives_from (phenotypic.abc_.MeasurementInfo attribute) (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute) (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) desc (phenotypic.abc_.MeasurementInfo attribute), [1] (phenotypic.abc_.PrefabPipeline property) (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] (phenotypic.prefab.FilamentousFungiPipeline property) (phenotypic.prefab.GridSectionPipeline property) (phenotypic.prefab.HeavyOtsuPipeline property) (phenotypic.prefab.HeavyRoundPeaksPipeline property) (phenotypic.prefab.HeavyWatershedPipeline property) (phenotypic.prefab.RoundPeaksPipeline property) (phenotypic.prefab.SpImagerPipeline property) (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute), [1] (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) desc_value (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) description (phenotypic.abc_.plotting.FigureSpec attribute), [1] DESCRIPTION (phenotypic.schema.STUDY_METADATA attribute) description (phenotypic.tune.Knob attribute) DET_EPS (phenotypic.grid.CenteredAutoGridFinder attribute) detail (phenotypic.gui.builder._validation.Issue attribute), [1] detect() (phenotypic.sdk_.BundleLayout class method) detect_mat (phenotypic.Image property) DETECTED (phenotypic.schema.QUALITY_COUNT attribute) DetectionMode (class in phenotypic.abc_) DetectMatAccessor (class in phenotypic._core._image_parts.accessors._detect_mat_accessor) detector_edge_refinement (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_footprint_width (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_min_peak_distance (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_noise_radius (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_peak_prominence (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_remove_noise (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_selection_mode (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_smoothing_sigma (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_split_merged (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_subtract_background (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) detector_thresh_method (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) deviation_gain (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) diagnostics (phenotypic.correction.ColorCheckerProfile attribute), [1] dict() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) DIFFERENCE_ENTROPY (phenotypic.schema.TEXTURE attribute) DIFFERENCE_VARIANCE (phenotypic.schema.TEXTURE attribute) DIST_WEIGHTED_CENTER_CC (phenotypic.schema.BBOX attribute) DIST_WEIGHTED_CENTER_RR (phenotypic.schema.BBOX attribute) distance_threshold (phenotypic.refine.MergeFragmentChains attribute) (phenotypic.refine.NearestNeighborMerger attribute) (phenotypic.refine.SmallToLargeMerger attribute) domain (phenotypic.tune.Knob attribute) domain() (phenotypic.tune.SearchSpace method) DOSE (phenotypic.schema.CONDITION_METADATA attribute) draw() (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) drop_frame_background (phenotypic.abc_.GpuDetector attribute) drop_frame_background() (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) dt (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.enhance.StructureSmoothing attribute) dtype (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor property) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale property) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap property) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask property) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB property) dynamic_range (phenotypic.util.ContrastMetrics attribute) E ECCENTRICITY (phenotypic.schema.SHAPE attribute) Edge (class in phenotypic.gui.builder._state) EDGE_CORRECTION (class in phenotypic.schema) edge_id (phenotypic.gui.builder._state.Edge attribute), [1] edge_noise_threshold (phenotypic.detect.FilamentousFungiDetector attribute) edge_refinement (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) EdgeCorrector (class in phenotypic.analysis) edges (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] EmptyImageError enable_gmm (phenotypic.detect.InoculumDetector attribute) encode() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) encode_srgb() (in module phenotypic.sdk_.colourspace) endswith() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) enhance (phenotypic.measure.MeasureTexture attribute) EnhanceBlockMatch (class in phenotypic.enhance) EnhanceLocalContrast (class in phenotypic.enhance) enough_data() (phenotypic.analysis.ErrorCutoffFinder method) ensure_metadata_prefix() (in module phenotypic.sdk_) ensure_typed_json_suffix() (in module phenotypic.sdk_) ENTROPY (phenotypic.schema.TEXTURE attribute) Entry (class in phenotypic.schema) environment_by (phenotypic.plotting.PlotMeasTimeSeries attribute) EnvVar (class in phenotypic.sdk_) eps (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.enhance.FlattenIllumination attribute) error_analysis_csv (phenotypic.sdk_.BundleLayout property) error_analysis_csv_path() (in module phenotypic.sdk_) error_analysis_html (phenotypic.sdk_.BundleLayout property) error_analysis_html_path() (in module phenotypic.sdk_) error_analysis_parquet (phenotypic.sdk_.BundleLayout property) error_analysis_parquet_path() (in module phenotypic.sdk_) ERROR_CATEGORY (phenotypic.schema.CURATION attribute) error_category_parquet() (phenotypic.sdk_.BundleLayout method) error_category_parquet_path() (in module phenotypic.sdk_) error_log_path (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) ErrorCategory (class in phenotypic.schema) ErrorCutoffFinder (class in phenotypic.analysis) ERRORS (phenotypic.sdk_.ProcessingStateKey attribute) errors_dir (phenotypic.sdk_.BundleLayout property) errors_dir() (in module phenotypic.sdk_) essential_cells (phenotypic.analysis.PersistencePairsResult attribute), [1] estimate (phenotypic.tune.GeneralizationReport attribute) estimate_concurrent_capacity() (in module phenotypic.sdk_.slurm) evaluate() (phenotypic.tune.Evaluator method) EvaluationResult (class in phenotypic.tune) Evaluator (class in phenotypic.tune) evaluator (phenotypic.tune.TuningSpec attribute) EVENT_DIAGNOSTICS (phenotypic.sdk_.DashboardManifestKey attribute) event_log_path() (in module phenotypic.sdk_) Excluded (class in phenotypic.tune) excluded (phenotypic.tune.InferredSearchSpace attribute) EXECUTION_MODE (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) expandtabs() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) EXPECTED (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) ExpectedVsDetectedCount (class in phenotypic.analysis) EXPERIMENT_ID (phenotypic.schema.EXPERIMENT_METADATA attribute) EXPERIMENT_METADATA (class in phenotypic.schema) EXPERIMENTER (phenotypic.schema.ACQUISITION_METADATA attribute) exposure_time (phenotypic.correction.CaptureMetadata attribute), [1] EXPOSURE_TIME (phenotypic.schema.ACQUISITION_METADATA attribute) EXT (phenotypic.sdk_.HDF attribute), [1] EXTENT (phenotypic.schema.SHAPE attribute) extent_margin (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) ExtractColonyCore (class in phenotypic.refine) F f_number (phenotypic.correction.CaptureMetadata attribute), [1] f_scale (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) fail_threshold (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) FAILED (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) failed (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) FAILURE_CATEGORIES (phenotypic.sdk_.DashboardManifestKey attribute) failure_score (phenotypic.tune.Evaluator attribute) failures_jsonl_path() (in module phenotypic.sdk_) fast_mode (phenotypic.enhance.NonLocalMeansDenoiser attribute) feature (phenotypic.refine.RemoveByFeature attribute) fiber_bend_overlay() (phenotypic.measure.MeasureOrientationZones method) field_type (phenotypic.tune.Excluded attribute) fig_background_estimate() (phenotypic.plotting.PlotDiagnostics method) fig_contrast_metrics() (phenotypic.plotting.PlotDiagnostics method) fig_detection_matrix() (phenotypic.plotting.PlotDiagnostics method) fig_gradient_magnitude() (phenotypic.plotting.PlotDiagnostics method) fig_intensity_histogram() (phenotypic.plotting.PlotDiagnostics method) fig_local_contrast_map() (phenotypic.plotting.PlotDiagnostics method) fig_local_variance() (phenotypic.plotting.PlotDiagnostics method) fig_noise_autocorrelation() (phenotypic.plotting.PlotDiagnostics method) fig_orientation_coherence() (phenotypic.plotting.PlotDiagnostics method) fig_power_spectral_density() (phenotypic.plotting.PlotDiagnostics method) fig_quality_summary() (phenotypic.plotting.PlotDiagnostics method) fig_ridge_response() (phenotypic.plotting.PlotDiagnostics method) figure (phenotypic.abc_.plotting.PlotPage attribute) figure() (in module phenotypic.abc_.plotting) FigureLike (in module phenotypic.abc_.plotting) figures() (phenotypic.abc_.plotting.PhtPlot method) (phenotypic.abc_.plotting.PlotAnalysis method) (phenotypic.abc_.plotting.PlotImage method) (phenotypic.abc_.plotting.PlotMeas method) (phenotypic.abc_.plotting.PlotQc method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) FigureSpec (class in phenotypic.abc_.plotting) FilamentousFungiDetector (class in phenotypic.detect) FilamentousFungiPipeline (class in phenotypic.prefab) file_fingerprint() (in module phenotypic.sdk_) filepath (phenotypic.sdk_.HDF attribute), [1] FilFinderDetector (class in phenotypic.detect) FILLED (phenotypic.schema.QUALITY_OCCUPANCY attribute) filter_spec_json() (in module phenotypic.analysis) filter_spec_query() (in module phenotypic.analysis) filters (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) filtration (phenotypic.analysis.PersistencePairsResult attribute), [1] finalize() (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) find() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) fit() (phenotypic.correction.ColorCheckerProfile method) Fixed (class in phenotypic.tune) FLAG (phenotypic.schema.QUALITY_CHECK attribute) flag_col() (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) flagged (phenotypic.tune.GeneralizationReport attribute) flagged_keys() (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) FlattenIllumination (class in phenotypic.enhance) FloatRange (class in phenotypic.tune) focal_length (phenotypic.correction.CaptureMetadata attribute), [1] FocusBlob (class in phenotypic.abc_) FocusBlobLoG (class in phenotypic.enhance) FocusEdge (class in phenotypic.abc_) FocusEdgeColorPhase (class in phenotypic.enhance) FocusEdgeFrangi (class in phenotypic.enhance) FocusEdgeHessian (class in phenotypic.enhance) FocusEdgeLaplace (class in phenotypic.enhance) FocusEdgeMeijering (class in phenotypic.enhance) FocusEdgeMonogenicPhase (class in phenotypic.enhance) FocusEdgePhase (class in phenotypic.enhance) FocusEdgeSato (class in phenotypic.enhance) FocusEdgeSobel (class in phenotypic.enhance) FocusEdgeTwoKPhase (class in phenotypic.enhance) footprint (phenotypic.detect.WatershedDetector attribute) footprint_width (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) FootprintMixin (class in phenotypic.abc_) (class in phenotypic.sdk_) foreground() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) format() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) format_map() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) format_sbatch_directives() (in module phenotypic.sdk_.slurm) frag_reach_px (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) FRAME_INDEX (phenotypic.schema.CULTURE_METADATA attribute) free_param_floor (phenotypic.tune.ScreeningConfig attribute) freeze_epsilon (phenotypic.tune.ScreeningConfig attribute) freeze_flagged (phenotypic.tune.ScreeningResult attribute) freeze_value() (in module phenotypic.tune) from_image() (phenotypic.correction.CaptureMetadata class method) from_json() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.ImagePipeline class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) from_label() (phenotypic.schema.ErrorCategory class method) from_orm() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) from_parquet() (phenotypic.tune.JournalStudyStore class method) from_pipeline_dag() (in module phenotypic.gui.builder._conversion_dag) fromkeys() (phenotypic.util.BackgroundMetrics class method) (phenotypic.util.ContrastMetrics class method) (phenotypic.util.NoiseMetrics class method) (phenotypic.util.QualityScores class method) (phenotypic.util.StructureMetrics class method) frozen (phenotypic.tune.ScreeningResult attribute) FUNDING (phenotypic.schema.STUDY_METADATA attribute) fusion (phenotypic.enhance.FocusEdgeColorPhase attribute) G g (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) gain (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) gamma (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) GAMMA_ENCODINGS (class in phenotypic.sdk_.constants_) gamma_high (phenotypic.enhance.FlattenIllumination attribute) gamma_low (phenotypic.enhance.FlattenIllumination attribute) gap (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.GeneralizationReport attribute) (phenotypic.tune.Trial attribute) gap_crossing_penalty (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) gap_margin_absolute (phenotypic.tune.GeneralizationReport attribute) (phenotypic.tune.HeldOutConfig attribute) gap_margin_relative (phenotypic.tune.GeneralizationReport attribute) (phenotypic.tune.HeldOutConfig attribute) gat_gain (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) gat_mu (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) gat_read_sigma (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) gat_scale_factor (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) gauss_n_iter (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) gauss_sigma (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) generalization_path() (in module phenotypic.sdk_) GeneralizationReport (class in phenotypic.tune) generate_dispatcher_chain() (in module phenotypic.sdk_.slurm) generate_dispatcher_script() (in module phenotypic.sdk_.slurm) generate_interpretation() (phenotypic.util.ImageMetricsCalculator static method) generate_output_key() (in module phenotypic.util) generate_recommendations() (phenotypic.util.ImageMetricsCalculator static method) GENERATION (phenotypic.schema.CULTURE_METADATA attribute) generation_staging_path() (in module phenotypic.sdk_) GENETIC_METADATA (class in phenotypic.schema) GENOTYPE (phenotypic.schema.GENETIC_METADATA attribute) geomedian_max_iter (phenotypic.measure.MeasureColor attribute) geomedian_tol (phenotypic.measure.MeasureColor attribute) geometric_median() (in module phenotypic.util) get() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.sdk_.register.AnalysisPluginRegistry class method) (phenotypic.sdk_.register.BaseRegistry class method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) get_analysis_plugin() (in module phenotypic.sdk_.register) get_col_edges() (phenotypic.abc_.GridFinder method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.ManualGridFinder method) get_data_group() (phenotypic.sdk_.HDF method) get_filters() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_group() (phenotypic.sdk_.HDF static method) get_headers() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) get_home() (phenotypic.sdk_.HDF method) get_image_group() (phenotypic.sdk_.HDF method) get_image_measurement_subgroup() (phenotypic.sdk_.HDF method) get_label_idx() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) get_labels() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) get_meas() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_model() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_ops() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_plots() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_post() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_protected_metadata_subgroup() (phenotypic.sdk_.HDF method) get_public_metadata_subgroup() (phenotypic.sdk_.HDF method) get_qc() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) get_root_group() (phenotypic.sdk_.HDF method) get_row_edges() (phenotypic.abc_.GridFinder method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.ManualGridFinder method) get_slurm_array_limit() (in module phenotypic.sdk_.slurm) get_slurm_max_submit_jobs() (in module phenotypic.sdk_.slurm) get_status_subgroup() (phenotypic.sdk_.HDF method) get_uncompressed_sizes_for_group() (phenotypic.sdk_.HDF static method) gmm_n_components (phenotypic.detect.InoculumDetector attribute) gmm_separation_threshold (phenotypic.detect.InoculumDetector attribute) GpuDetector (class in phenotypic.abc_) gray (phenotypic.Image property) GRAY_PCT (phenotypic.schema.ColorComposition attribute) GrayOpening (class in phenotypic.enhance) Grayscale (class in phenotypic._core._image_parts.accessors._grayscale_accessor) GRAYSCALE (phenotypic.sdk_.constants_.IMAGE_MODE attribute) GRAYSCALE_SINGLE_CHANNEL (phenotypic.sdk_.constants_.IMAGE_MODE attribute) GrayscaleOutOfRangeError GREEN_PCT (phenotypic.schema.ColorComposition attribute) GRID (class in phenotypic.schema) grid (phenotypic.GridImage property) GRID (phenotypic.sdk_.constants_.IMAGE_TYPES attribute) grid section grid_aligner_axis (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) grid_aligner_mode (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) GRID_LINREG_STATS (class in phenotypic.schema) GRID_LINREG_STATS_EXTRACTOR (class in phenotypic.sdk_.constants_) GRID_SECTION (phenotypic.sdk_.constants_.IMAGE_TYPES attribute) GRID_SPREAD (class in phenotypic.schema) GridAligner (class in phenotypic.correction) GridAlignmentRefiner (class in phenotypic.refine) GridApply (class in phenotypic.grid) GridConfig (class in phenotypic.tune.strategy) GridCorrector (class in phenotypic.abc_) GridFinder (class in phenotypic.abc_) GridImage GridImageInputError GridInferenceMixin (class in phenotypic.sdk_) GridMeasureFeatures (class in phenotypic.abc_) GridObjectDetector (class in phenotypic.abc_) GridObjectRefiner (class in phenotypic.abc_) GridOccupancy (class in phenotypic.analysis) GridOperation (class in phenotypic.abc_) GridOversizedObjectRemover (class in phenotypic.refine) GridSectionPipeline (class in phenotypic.prefab) GridStrategy (class in phenotypic.tune.strategy) GroundTruthMasks (class in phenotypic.tune.score) group_key (phenotypic.tune.HeldOutConfig attribute) group_members() (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) groupby (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute), [1] (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute), [1] (phenotypic.plotting.PlotColonyMetricOverTime attribute) GROWTH_RATE (phenotypic.schema.LOG_GROWTH_MODEL attribute) gt (phenotypic.tune.score.SupervisedScorer attribute) gt_format (phenotypic.tune.score.GroundTruthMasks attribute) gt_masks_source (phenotypic.tune.score.GroundTruthMasks attribute) (phenotypic.tune.score.ReferenceFreeScorer attribute) gui_launch_owner_path() (in module phenotypic.sdk_) GUI_RECORD_GENERATION (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) H h (phenotypic.enhance.NonLocalMeansDenoiser attribute) has_config_suffix() (in module phenotypic.sdk_) has_results (phenotypic.sdk_.BundleLayout property) HDF (class in phenotypic.sdk_) hdf_path() (phenotypic.sdk_.BundleLayout method) HdfAttr (class in phenotypic.sdk_) header_scheme() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) header_to_module() (in module phenotypic.schema) HeavyOtsuPipeline (class in phenotypic.prefab) HeavyRoundPeaksPipeline (class in phenotypic.prefab) HeavyWatershedPipeline (class in phenotypic.prefab) held_out (phenotypic.tune.TuningSpec attribute) held_out_fraction (phenotypic.tune.HeldOutConfig attribute) heldout_score (phenotypic.tune.GeneralizationReport attribute) HeldOutConfig (class in phenotypic.tune) help (phenotypic.abc_.plotting.Control attribute) high (phenotypic.detect.HysteresisDetector attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.TuneSpec attribute) high_threshold (phenotypic.detect.CannyDetector attribute) histogram() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) home_posix (phenotypic.sdk_.HDF attribute), [1] hsv (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor property) HSV (phenotypic.sdk_.constants_.IMAGE_MODE attribute) HSV_CONE_VARIANCE (phenotypic.schema.ColorHSV attribute) hsv_to_cone() (in module phenotypic.util) HUE_ROBUST_MEAN (phenotypic.schema.ColorHSV attribute) HUMIDITY (phenotypic.schema.CULTURE_METADATA attribute) hyphae HysteresisDetector (class in phenotypic.detect) I ICC (class in phenotypic.analysis) ignore_borders (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.HysteresisDetector attribute) (phenotypic.detect.IsodataDetector attribute) (phenotypic.detect.LiDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.MeanDetector attribute) (phenotypic.detect.MinimumDetector attribute) (phenotypic.detect.OtsuDetector attribute) (phenotypic.detect.UserThreshold attribute) (phenotypic.detect.YenDetector attribute) ignore_zeros (phenotypic.detect.HysteresisDetector attribute) (phenotypic.detect.IsodataDetector attribute) (phenotypic.detect.LiDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.MeanDetector attribute) (phenotypic.detect.MinimumDetector attribute) (phenotypic.detect.OtsuDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.detect.UserThreshold attribute) (phenotypic.detect.WatershedDetector attribute) (phenotypic.detect.YenDetector attribute) IllegalAssignmentError IllegalElementAssignmentError iloc() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) Image image (phenotypic.abc_.MeasurementInfo attribute), [1] (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute), [1] (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) IMAGE_ACQUISITION (phenotypic.schema.REMBI_MODULE attribute) IMAGE_DATA (phenotypic.schema.REMBI_MODULE attribute) IMAGE_MEASUREMENT_IMAGE_SUBGROUP_KEY (phenotypic.sdk_.constants_.IO attribute) IMAGE_MEASUREMENT_SUBGROUP_KEY (phenotypic.sdk_.HDF attribute), [1] IMAGE_MODE (class in phenotypic.sdk_.constants_) IMAGE_NAME (phenotypic.schema.METADATA attribute) image_op (phenotypic.grid.GridApply attribute) IMAGE_SET_DATA_POSIX (phenotypic.sdk_.HDF attribute), [1] IMAGE_SET_HDF5_PARENT_GROUP (phenotypic.sdk_.constants_.IO attribute) IMAGE_SET_ROOT_POSIX (phenotypic.sdk_.HDF attribute), [1] IMAGE_STATUS_SUBGROUP_KEY (phenotypic.sdk_.constants_.IO attribute) (phenotypic.sdk_.HDF attribute), [1] IMAGE_TASK_MAPPING (phenotypic.sdk_.JobMetadataKey attribute) IMAGE_TYPE (phenotypic.schema.METADATA attribute) (phenotypic.sdk_.JobMetadataKey attribute) IMAGE_TYPES (class in phenotypic.sdk_.constants_) ImageCorrector (class in phenotypic.abc_) ImageDenoiser (class in phenotypic.abc_) ImageEnhancer (class in phenotypic.abc_) ImageInverter (class in phenotypic.enhance) ImageMetricsCalculator (class in phenotypic.util) ImageOperation (class in phenotypic.abc_) ImageOperationError ImagePipeline ImageRGB (class in phenotypic._core._image_parts.accessors._rgb_accessor) IMAGING_DATE (phenotypic.schema.ACQUISITION_METADATA attribute) IMC1 (phenotypic.schema.TEXTURE attribute) IMC2 (phenotypic.schema.TEXTURE attribute) IMFORMAT (phenotypic.schema.METADATA attribute) ImmutableComponentError ImportanceReport (class in phenotypic.tune) importances (phenotypic.tune.ImportanceReport attribute) imread() (phenotypic.Image class method) imsave() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) INCLUDE_DATASET_COLUMN (phenotypic.sdk_.JobMetadataKey attribute) include_diagnostics (phenotypic.measure.MeasureOrientationZones attribute) include_xy (phenotypic.measure.MeasureColor attribute) include_XYZ (phenotypic.measure.MeasureColor attribute) INCUBATOR_POSITION (phenotypic.schema.PLATE_METADATA attribute) index() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) INDUCER (phenotypic.schema.CONDITION_METADATA attribute) infer_group_key() (in module phenotypic.tune) infer_search_space() (in module phenotypic.tune) InferredSearchSpace (class in phenotypic.tune) info() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) init_level_set (phenotypic.detect.ChanVeseDetector attribute) INITIAL_IMAGES (phenotypic.sdk_.ProcessingStateKey attribute) inoculum inoculum_detector (phenotypic.detect.FilamentousFungiDetector attribute) InoculumDetector (class in phenotypic.detect) INPUT_IMAGE_CLASS_NAME (in module phenotypic.gui.builder._state) input_layer (phenotypic.abc_.GpuDetector attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.ContrastStretching attribute) (phenotypic.sdk_.InputLayerMixin attribute) INPUT_PATH (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) input_scaling (phenotypic.abc_.GpuDetector attribute) InputLayerMixin (class in phenotypic.sdk_) InputShapeMismatchError insert_metadata() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) inspect() (phenotypic.abc_.plotting.PhtPlot method) (phenotypic.abc_.plotting.PlotAnalysis method) (phenotypic.abc_.plotting.PlotImage method) (phenotypic.abc_.plotting.PlotMeas method) (phenotypic.abc_.plotting.PlotQc method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) INSTRUMENT (phenotypic.schema.ACQUISITION_METADATA attribute) INTEGRATED_INTENSITY (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.SIZE attribute) INTENSITY (class in phenotypic.schema) intensity_source (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) INTENSITY_WEIGHTED_CENTER_CC (phenotypic.schema.BBOX attribute) INTENSITY_WEIGHTED_CENTER_RR (phenotypic.schema.BBOX attribute) interactions_estimated (phenotypic.tune.ImportanceReport attribute) (phenotypic.tune.ScreeningResult attribute) InterfaceError IntRange (class in phenotypic.tune) inv (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) InvalidHsvSchemaError InvalidMapValueError InvalidMaskScalarValueError InvalidMaskValueError InvalidShapeError INVERSE_DIFFERENCE_MOMENT (phenotypic.schema.TEXTURE attribute) invert_edges (phenotypic.detect.CannyDetector attribute) IO (class in phenotypic.sdk_.constants_) iou_tau (phenotypic.tune.score.SupervisedScorer attribute) IQR_INTENSITY (phenotypic.schema.INTENSITY attribute) is_active() (phenotypic.tune.Knob method) is_ambiguous() (phenotypic.sdk_.constants_.IMAGE_MODE method) is_array() (phenotypic.sdk_.constants_.IMAGE_MODE method) is_binary_mask() (in module phenotypic.sdk_) IS_COMPLETE (phenotypic.sdk_.DashboardManifestKey attribute) is_exhausted() (phenotypic.tune.strategy.GridStrategy method) (phenotypic.tune.strategy.RandomStrategy method) (phenotypic.tune.strategy.SearchStrategy method) is_fitted (phenotypic.correction.ColorCheckerProfile attribute), [1] is_matrix() (phenotypic.sdk_.constants_.IMAGE_MODE method) is_metadata_header() (in module phenotypic.sdk_) is_none() (phenotypic.sdk_.constants_.IMAGE_MODE method) is_resumable_in_place() (phenotypic.tune.JournalStudyStore method) is_unattended_safe() (phenotypic.tune.score.ReferenceFreeScorer method) isalnum() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isalpha() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isascii() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isdecimal() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isdigit() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isempty() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) isidentifier() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) islower() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isnumeric() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) iso (phenotypic.correction.CaptureMetadata attribute), [1] IsodataDetector (class in phenotypic.detect) isprintable() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isspace() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) Issue (class in phenotypic.gui.builder._validation) istitle() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) isupper() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) items() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) iter_figures() (phenotypic.abc_.plotting.PhtPlot method) (phenotypic.abc_.plotting.PlotAnalysis method) (phenotypic.abc_.plotting.PlotImage method) (phenotypic.abc_.plotting.PlotMeas method) (phenotypic.abc_.plotting.PlotQc method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) J job_metadata_path() (in module phenotypic.sdk_) job_name (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) JobMetadataKey (class in phenotypic.sdk_) join() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) JournalStudyStore (class in phenotypic.tune) JPEG_FILE_EXTENSIONS (phenotypic.sdk_.constants_.IO attribute) json() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) K k (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute), [1] (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) K_FIT (phenotypic.schema.LOG_GROWTH_MODEL attribute) k_high (phenotypic.detect.MadHysteresisDetector attribute) k_loose (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) k_low (phenotypic.detect.MadHysteresisDetector attribute) K_MAX (phenotypic.schema.LOG_GROWTH_MODEL attribute) k_strict (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) keep_colors (phenotypic.enhance.ContrastStretching attribute) KeepNearestCenter (class in phenotypic.refine) KeepSectionLargest (class in phenotypic.refine) kernel (phenotypic.enhance.SubtractRollingBall attribute) kernel_size (phenotypic.enhance.EnhanceLocalContrast attribute) (phenotypic.enhance.FocusEdgeLaplace attribute) key (phenotypic.abc_.plotting.PlotPage attribute) (phenotypic.tune.Excluded attribute) (phenotypic.tune.Knob property) keys() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.tune.SearchSpace method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) KEYWORDS (phenotypic.schema.STUDY_METADATA attribute) kind (phenotypic.abc_.plotting.Control attribute) (phenotypic.gui.builder._state.Edge attribute), [1] (phenotypic.gui.builder._validation.Issue attribute), [1] (phenotypic.tune.Categorical attribute) (phenotypic.tune.Fixed attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.GeneralizationReport attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.strategy.GridConfig attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) kind() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) Kmax_label (phenotypic.analysis.LogGrowthModel attribute) knee_point() (phenotypic.tune.JournalStudyStore method) Knob (class in phenotypic.tune) knobs (phenotypic.tune.InferredSearchSpace attribute) (phenotypic.tune.SearchSpace attribute) L L_STAR_GEOMEDIAN (phenotypic.schema.ColorLab attribute) L_STAR_MEDOID (phenotypic.schema.ColorLab attribute) Lab (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor property) lab_to_srgb_hex() (in module phenotypic.util) LAB_TOTAL_VARIANCE (phenotypic.schema.ColorLab attribute) label (phenotypic.abc_.MeasurementInfo attribute), [1] (phenotypic.abc_.plotting.Control attribute) (phenotypic.abc_.plotting.PlotPage attribute) (phenotypic.gui.builder._state.BlockNode attribute), [1] (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.Entry attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute), [1] (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) LABEL (phenotypic.schema.OBJECT attribute) label (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) LabelEditorWidget (class in phenotypic.sdk_.napari_) labels (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor property) labels() (phenotypic.schema.ErrorCategory class method) labels2series() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) lam (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) LAM (phenotypic.schema.LOG_GROWTH_MODEL attribute) lambda1 (phenotypic.detect.ChanVeseDetector attribute) lambda2 (phenotypic.detect.ChanVeseDetector attribute) LAST_UPDATED (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) LazyWidgetMixin (class in phenotypic.sdk_) left (phenotypic.correction.CropImage attribute) (phenotypic.correction.PadImage attribute) LEFT_DISTANCE (phenotypic.schema.NEIGHBOR_DIST attribute) LEFT_NEIGHBOR_OBJ_LABEL (phenotypic.schema.NEIGHBOR_DIST attribute) lens_model (phenotypic.correction.CaptureMetadata attribute), [1] LIBRARY_ID (phenotypic.schema.SAMPLE_METADATA attribute) LICENSE (phenotypic.schema.STUDY_METADATA attribute) LiDetector (class in phenotypic.detect) lifetimes (phenotypic.analysis.PersistencePairsResult attribute), [1] lift (phenotypic.enhance.FocusEdgeColorPhase attribute) LINEAR (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) LINEAR_CAP_AND_LAG_MODEL (class in phenotypic.schema) LINEAR_LAG_MODEL (class in phenotypic.schema) LINEAR_RGB (phenotypic.sdk_.constants_.IMAGE_MODE attribute) LinearCapAndLagModel (class in phenotypic.analysis) LinearLagModel (class in phenotypic.analysis) LINKS (phenotypic.schema.STUDY_METADATA attribute) list_slot_counts (phenotypic.gui.builder._state.BlockNode attribute), [1] ljust() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) load() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor class method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale class method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap class method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask class method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB class method) load_colony() (in module phenotypic.data) load_early_colony() (in module phenotypic.data) load_faint_early_colony() (in module phenotypic.data) load_frame() (phenotypic.sdk_.HDF static method) load_fungi_plate() (in module phenotypic.data) load_fungi_plate_full() (in module phenotypic.data) load_hdf5() (phenotypic.Image class method) load_image_from_hdf() (in module phenotypic.sdk_) load_master_measurements() (in module phenotypic.sdk_) load_plate_12hr() (in module phenotypic.data) load_plate_72hr() (in module phenotypic.data) load_series() (phenotypic.sdk_.HDF static method) load_synth_yeast_plate() (in module phenotypic.data) load_yeast_plate() (in module phenotypic.data) load_yeast_plate_full() (in module phenotypic.data) loc() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) LocalEdgeDenoise (class in phenotypic.enhance) log (phenotypic.tune.FloatRange attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.TuneSpec attribute) LOG_GROWTH_MODEL (class in phenotypic.schema) log_path (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) LogGrowthModel (class in phenotypic.analysis) logs_dir() (in module phenotypic.sdk_) long_range_lag (phenotypic.measure.MeasureOrientationZones attribute) LONG_RANGE_ROTATION_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_MASK_DENSE_TO_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_SUPPORT_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_SUPPORT_MASK_DENSE_TO_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_SUPPORT_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) LONG_RANGE_ROTATION_SUPPORT_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) loss (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) LOSS (phenotypic.schema.MODEL_METRICS attribute) low (phenotypic.detect.HysteresisDetector attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.TuneSpec attribute) low_threshold (phenotypic.detect.CannyDetector attribute) lower() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) LOWER_FENCE (phenotypic.schema.QUALITY_TUKEY attribute) lower_percentile (phenotypic.enhance.ContrastStretching attribute) lstrip() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) M MAD (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_ZMAX attribute) mad_window (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) MadHysteresisDetector (class in phenotypic.detect) MADOutlierRemover (class in phenotypic.analysis) MAE (phenotypic.schema.MODEL_METRICS attribute) MAJOR_AXIS_LENGTH (phenotypic.schema.SHAPE attribute) make_synthetic_colony() (in module phenotypic.data) make_synthetic_filamentous_plate() (in module phenotypic.data) make_synthetic_plate() (in module phenotypic.data) maketrans() (phenotypic.abc_.MeasurementInfo static method) (phenotypic.schema.ACQUISITION_METADATA static method) (phenotypic.schema.BBOX static method) (phenotypic.schema.ColorComposition static method) (phenotypic.schema.ColorHSV static method) (phenotypic.schema.ColorLab static method) (phenotypic.schema.Colorxy static method) (phenotypic.schema.ColorXYZ static method) (phenotypic.schema.CONDITION_METADATA static method) (phenotypic.schema.CULTURE_METADATA static method) (phenotypic.schema.CURATION static method) (phenotypic.schema.EDGE_CORRECTION static method) (phenotypic.schema.ErrorCategory static method) (phenotypic.schema.EXPERIMENT_METADATA static method) (phenotypic.schema.GENETIC_METADATA static method) (phenotypic.schema.GRID static method) (phenotypic.schema.GRID_LINREG_STATS static method) (phenotypic.schema.GRID_SPREAD static method) (phenotypic.schema.INTENSITY static method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL static method) (phenotypic.schema.LINEAR_LAG_MODEL static method) (phenotypic.schema.LOG_GROWTH_MODEL static method) (phenotypic.schema.MeasurementInfo static method) (phenotypic.schema.METADATA static method) (phenotypic.schema.METADATA_MATCH static method) (phenotypic.schema.MODEL_METRICS static method) (phenotypic.schema.NEIGHBOR_DIST static method) (phenotypic.schema.OBJECT static method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC static method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY static method) (phenotypic.schema.PLATE_METADATA static method) (phenotypic.schema.QUALITY_CHECK static method) (phenotypic.schema.QUALITY_COUNT static method) (phenotypic.schema.QUALITY_ICC static method) (phenotypic.schema.QUALITY_MAD static method) (phenotypic.schema.QUALITY_OCCUPANCY static method) (phenotypic.schema.QUALITY_SE static method) (phenotypic.schema.QUALITY_TUKEY static method) (phenotypic.schema.QUALITY_ZMAX static method) (phenotypic.schema.RADIAL_EXPANSION static method) (phenotypic.schema.REMBI_MODULE static method) (phenotypic.schema.SAMPLE_METADATA static method) (phenotypic.schema.SHAPE static method) (phenotypic.schema.SIZE static method) (phenotypic.schema.STUDY_METADATA static method) (phenotypic.schema.SYMMETRIC_ZONES static method) (phenotypic.schema.TEXTURE static method) (phenotypic.sdk_.constants_.ConstantLabels static method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS static method) (phenotypic.sdk_.constants_.PIPE_STATUS static method) manifest (phenotypic.sdk_.AnalysisArtifactPaths attribute) manifest_json_path() (in module phenotypic.sdk_) ManualGridFinder (class in phenotypic.grid) ManualGridPointDetector (class in phenotypic.detect) ManualPointDetector (class in phenotypic.detect) ManualRefine (class in phenotypic.refine) mask (phenotypic.enhance.FocusEdgeLaplace attribute) mask_fill_origin (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) mask_fill_structure (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) mask_opener_footprint (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) mask_opener_n_iter (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) mask_opener_width (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) MaskClosing (class in phenotypic.refine) MaskDilation (class in phenotypic.refine) MaskErosion (class in phenotypic.refine) MaskFill (class in phenotypic.refine) MaskGradient (class in phenotypic.refine) MaskOpening (class in phenotypic.refine) masks_for() (phenotypic.tune.score.GroundTruthMasks method) MaskWhiteTophat (class in phenotypic.refine) master_csv (phenotypic.sdk_.BundleLayout property) master_measurements_csv_path() (in module phenotypic.sdk_) master_measurements_parquet_path() (in module phenotypic.sdk_) master_parquet (phenotypic.sdk_.BundleLayout property) match_strategy (phenotypic.tune.score.SupervisedScorer attribute) matched_cumulative_rotation_overlay() (phenotypic.measure.MeasureOrientationZones method) matches_any_suffix() (in module phenotypic.sdk_) MATING_TYPE (phenotypic.schema.GENETIC_METADATA attribute) MATRIX_FORMATS (phenotypic.sdk_.constants_.IMAGE_MODE attribute) MAX_BRANCH_LENGTH (phenotypic.schema.RADIAL_EXPANSION attribute) MAX_CC (phenotypic.schema.BBOX attribute) max_coeff_variance (phenotypic.refine.RemoveGridOutliers attribute) max_colony_radius_px (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) max_diameter (phenotypic.detect.InoculumDetector attribute) MAX_EXPANSION (phenotypic.schema.SYMMETRIC_ZONES attribute) max_failures (phenotypic.tune.Budget attribute) MAX_FERET_DIAMETER (phenotypic.schema.SHAPE attribute) max_gap_length (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) max_intensity (phenotypic.util.ImageMetricsCalculator property) max_iter (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) max_num_iter (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.refine.Thinning attribute) max_prune_iterations (phenotypic.detect.FilFinderDetector attribute) max_radius (phenotypic.enhance.FocusBlobLoG attribute) MAX_RADIUS (phenotypic.schema.SHAPE attribute) MAX_RR (phenotypic.schema.BBOX attribute) max_value (phenotypic.refine.RemoveByFeature attribute) MAXIMUM_INTENSITY (phenotypic.schema.INTENSITY attribute) MaxModifiedZScore (class in phenotypic.analysis) MEAN (phenotypic.schema.QUALITY_SE attribute) mean_coherence (phenotypic.util.StructureMetrics attribute) MEAN_EXPANSION (phenotypic.schema.SYMMETRIC_ZONES attribute) mean_gradient (phenotypic.util.BackgroundMetrics attribute) MEAN_INTENSITY (phenotypic.schema.INTENSITY attribute) MEAN_RADIUS (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SHAPE attribute) MeanDetector (class in phenotypic.detect) meas (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) measure() (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.ManualGridFinder method) (phenotypic.ImagePipeline method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) measure_kwargs (phenotypic.refine.RemoveByFeature attribute) MeasureBounds (class in phenotypic.measure) MeasureColor (class in phenotypic.measure) MEASURED (phenotypic.sdk_.constants_.PIPE_STATUS attribute) MeasureFeatures (class in phenotypic.abc_) MeasureGridLinRegStats (class in phenotypic.measure) MeasureGridSpread (class in phenotypic.measure) MeasureIntensity (class in phenotypic.measure) measurement_columns() (phenotypic.analysis.ErrorCutoffFinder method) measurement_prefixes (phenotypic.analysis.ErrorCutoffFinder attribute) MeasurementInfo (class in phenotypic.abc_) (class in phenotypic.schema) measurements (phenotypic.plotting.PlotMeasTimeSeries attribute) measurements_by_feature_dir() (in module phenotypic.sdk_) measurements_csv_path() (in module phenotypic.sdk_) measurements_parquet_path() (in module phenotypic.sdk_) MeasureNeighborDist (class in phenotypic.measure) MeasureOrientationZones (class in phenotypic.measure) MeasureShape (class in phenotypic.measure) MeasureSize (class in phenotypic.measure) MeasureSymmetricZones (class in phenotypic.measure) MeasureTexture (class in phenotypic.measure) MEDIA (phenotypic.schema.CONDITION_METADATA attribute) MEDIAN (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_ZMAX attribute) median_cval (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) median_filter_size (phenotypic.correction.ColorCheckerProfile attribute) MEDIAN_INTENSITY (phenotypic.schema.INTENSITY attribute) median_mode (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) median_radius (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) MEDIAN_RADIUS (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SHAPE attribute) median_shape (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) MedianFilter (class in phenotypic.enhance) medoid_ciede2000() (in module phenotypic.util) MEDOID_COLOR_HEX (phenotypic.schema.ColorLab attribute) medoid_max_pixels (phenotypic.measure.MeasureColor attribute) member_for_header() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) member_key_cols (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) MERGED (phenotypic.schema.ErrorCategory attribute) MergeFragmentChains (class in phenotypic.refine) meta_validate() (phenotypic.tune.score.ReferenceFreeScorer method) METADATA (class in phenotypic.schema) metadata (phenotypic.abc_.plotting.PlotPage attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.Image property) metadata_category_for_label() (in module phenotypic.sdk_) metadata_category_prefixes() (in module phenotypic.sdk_) METADATA_CSV (phenotypic.sdk_.JobMetadataKey attribute) metadata_csv_deliverable_path() (in module phenotypic.sdk_) METADATA_MATCH (class in phenotypic.schema) METADATA_ONLY (phenotypic.schema.METADATA_MATCH attribute) metadata_only_mask() (in module phenotypic.sdk_) MetadataAccessor (class in phenotypic._core._image_parts.accessors._metadata_accessor) MetadataKeySpacesError MetadataKeyValueError MetadataValueNonScalarError method (phenotypic.abc_.plotting.FigureSpec attribute), [1] (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.Skeletonize attribute) (phenotypic.refine.TrimAsymmetry attribute) (phenotypic.tune.ImportanceReport attribute) (phenotypic.tune.ScreeningResult attribute) METRIC (phenotypic.schema.QUALITY_CHECK attribute) metric_col() (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) michelson (phenotypic.util.ContrastMetrics attribute) migrate_legacy_machine_state() (in module phenotypic.sdk_) migrate_legacy_qc() (in module phenotypic.sdk_) migration_backup_dir() (in module phenotypic.sdk_) migration_backup_path() (in module phenotypic.sdk_) migration_lock_path() (in module phenotypic.sdk_) migration_receipt_path() (in module phenotypic.sdk_) min_area (phenotypic.tune.score.ReferenceFreeScorer attribute) min_branch_width_px (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) MIN_CC (phenotypic.schema.BBOX attribute) min_cc_area (phenotypic.refine.TrimAsymmetry attribute) min_core_area (phenotypic.refine.ExtractColonyCore attribute) min_diameter (phenotypic.detect.InoculumDetector attribute) min_distance (phenotypic.refine.SeparateObjects attribute) min_error_n (phenotypic.analysis.ErrorCutoffFinder attribute) MIN_FERET_DIAMETER (phenotypic.schema.SHAPE attribute) min_fit_objects (phenotypic.grid.CenteredAutoGridFinder attribute) min_good_n (phenotypic.analysis.ErrorCutoffFinder attribute) min_heldout_plates (phenotypic.tune.HeldOutConfig attribute) min_object_area (phenotypic.refine.TrimAsymmetry attribute) min_overlap_ratio (phenotypic.detect.CompositeDetector attribute) min_peak_distance (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) min_radius (phenotypic.enhance.FocusBlobLoG attribute) min_replicates (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) MIN_RR (phenotypic.schema.BBOX attribute) min_rungs (phenotypic.tune.Evaluator attribute) min_samples_per_ring (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) min_size (phenotypic.detect.CannyDetector attribute) (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.WatershedDetector attribute) (phenotypic.refine.NearestNeighborMerger attribute) (phenotypic.refine.SmallObjectRemover attribute) min_stability_n (phenotypic.tune.Evaluator attribute) min_swatch_area_frac (phenotypic.correction.ColorCheckerProfile attribute) min_value (phenotypic.refine.RemoveByFeature attribute) min_wavelength (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) MINIMUM_INTENSITY (phenotypic.schema.INTENSITY attribute) MinimumDetector (class in phenotypic.detect) MINOR_AXIS_LENGTH (phenotypic.schema.SHAPE attribute) mirror_csv (phenotypic.sdk_.BundleLayout property) mirror_parquet (phenotypic.sdk_.BundleLayout property) missing_task_id_message (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) modality() (phenotypic.tune.score.GroundTruthMasks method) mode (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.GridAligner attribute) (phenotypic.correction.PadImage attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.detect.CompositeDetector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeSato attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.SetDetectMode attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.sdk_.HDF attribute), [1] model (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) model_computed_fields (phenotypic.abc_.BackgroundSubtraction attribute) (phenotypic.abc_.BaseOperation attribute) (phenotypic.abc_.ContrastAdjustment attribute) (phenotypic.abc_.FocusBlob attribute) (phenotypic.abc_.FocusEdge attribute) (phenotypic.abc_.GpuDetector attribute) (phenotypic.abc_.GridCorrector attribute) (phenotypic.abc_.GridFinder attribute) (phenotypic.abc_.GridMeasureFeatures attribute) (phenotypic.abc_.GridObjectDetector attribute) (phenotypic.abc_.GridObjectRefiner attribute) (phenotypic.abc_.GridOperation attribute) (phenotypic.abc_.ImageCorrector attribute) (phenotypic.abc_.ImageDenoiser attribute) (phenotypic.abc_.ImageEnhancer attribute) (phenotypic.abc_.ImageOperation attribute) (phenotypic.abc_.MeasureFeatures attribute) (phenotypic.abc_.MorphologicalFiltering attribute) (phenotypic.abc_.ObjectDetector attribute) (phenotypic.abc_.ObjectRefiner attribute) (phenotypic.abc_.PostMeasurement attribute) (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.abc_.Smoothing attribute) (phenotypic.abc_.ThresholdDetector attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ErrorCutoffFinder attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute) (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.CaptureMetadata attribute) (phenotypic.correction.ColorCheckerProfile attribute) (phenotypic.correction.ColorCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.CropImage attribute) (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.correction.GridAligner attribute) (phenotypic.correction.PadImage attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.detect.CannyDetector attribute) (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.detect.CompositeDetector attribute) (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.FilFinderDetector attribute) (phenotypic.detect.HysteresisDetector attribute) (phenotypic.detect.InoculumDetector attribute) (phenotypic.detect.IsodataDetector attribute) (phenotypic.detect.LiDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.ManualGridPointDetector attribute) (phenotypic.detect.ManualPointDetector attribute) (phenotypic.detect.MeanDetector attribute) (phenotypic.detect.MinimumDetector attribute) (phenotypic.detect.OtsuDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SecondaryOtsuDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.detect.TriangleDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.detect.UserThreshold attribute) (phenotypic.detect.WatershedDetector attribute) (phenotypic.detect.YenDetector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.ContrastStretching attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.EnhanceLocalContrast attribute) (phenotypic.enhance.FlattenIllumination attribute) (phenotypic.enhance.FocusBlobLoG attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeLaplace attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.enhance.FocusEdgeSato attribute) (phenotypic.enhance.FocusEdgeSobel attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.ImageInverter attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.RankMedianEnhancer attribute) (phenotypic.enhance.SetDetectMode attribute) (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.enhance.SubtractRollingBall attribute) (phenotypic.enhance.SubtractWhiteTophat attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) (phenotypic.enhance.WhiteTophatEnhance attribute) (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.grid.GridApply attribute) (phenotypic.grid.ManualGridFinder attribute) (phenotypic.measure.MeasureBounds attribute) (phenotypic.measure.MeasureColor attribute) (phenotypic.measure.MeasureGridLinRegStats attribute) (phenotypic.measure.MeasureGridSpread attribute) (phenotypic.measure.MeasureIntensity attribute) (phenotypic.measure.MeasureNeighborDist attribute) (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureShape attribute) (phenotypic.measure.MeasureSize attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.measure.MeasureTexture attribute) (phenotypic.plotting.PlotColonyMetricOverTime attribute) (phenotypic.plotting.PlotDetectModes attribute) (phenotypic.plotting.PlotDiagnostics attribute) (phenotypic.plotting.PlotMeasTimeSeries attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) (phenotypic.refine.ExtractColonyCore attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.GridOversizedObjectRemover attribute) (phenotypic.refine.KeepNearestCenter attribute) (phenotypic.refine.KeepSectionLargest attribute) (phenotypic.refine.ManualRefine attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskFill attribute) (phenotypic.refine.MaskGradient attribute) (phenotypic.refine.MaskOpening attribute) (phenotypic.refine.MaskWhiteTophat attribute) (phenotypic.refine.MergeFragmentChains attribute) (phenotypic.refine.NearestNeighborMerger attribute) (phenotypic.refine.ReduceSectionsByLine attribute) (phenotypic.refine.RefineBySineFit attribute) (phenotypic.refine.RemoveBorderObjects attribute) (phenotypic.refine.RemoveByFeature attribute) (phenotypic.refine.RemoveGridOutliers attribute) (phenotypic.refine.RemoveLowCircularity attribute) (phenotypic.refine.SeparateObjects attribute) (phenotypic.refine.Skeletonize attribute) (phenotypic.refine.SmallObjectRemover attribute) (phenotypic.refine.SmallToLargeMerger attribute) (phenotypic.refine.Thinning attribute) (phenotypic.refine.TrimAsymmetry attribute) (phenotypic.sdk_.InputLayerMixin attribute) (phenotypic.sdk_.NormalizedOutputMixin attribute) (phenotypic.tune.Budget attribute) (phenotypic.tune.Categorical attribute) (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Evaluator attribute) (phenotypic.tune.Excluded attribute) (phenotypic.tune.Fixed attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.HeldOutConfig attribute) (phenotypic.tune.ImportanceReport attribute) (phenotypic.tune.InferredSearchSpace attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.Knob attribute) (phenotypic.tune.score.CompositeScorer attribute) (phenotypic.tune.score.GroundTruthMasks attribute) (phenotypic.tune.score.QCScorer attribute) (phenotypic.tune.score.ReferenceFreeScorer attribute) (phenotypic.tune.score.Scorer attribute) (phenotypic.tune.score.SupervisedScorer attribute) (phenotypic.tune.SearchSpace attribute) (phenotypic.tune.strategy.GridConfig attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) (phenotypic.tune.strategy.StrategyConfig attribute) (phenotypic.tune.Trial attribute) (phenotypic.tune.TuningSpec attribute) model_config (phenotypic.abc_.BackgroundSubtraction attribute) (phenotypic.abc_.BaseOperation attribute) (phenotypic.abc_.ContrastAdjustment attribute) (phenotypic.abc_.FocusBlob attribute) (phenotypic.abc_.FocusEdge attribute) (phenotypic.abc_.GpuDetector attribute) (phenotypic.abc_.GridCorrector attribute) (phenotypic.abc_.GridFinder attribute) (phenotypic.abc_.GridMeasureFeatures attribute) (phenotypic.abc_.GridObjectDetector attribute) (phenotypic.abc_.GridObjectRefiner attribute) (phenotypic.abc_.GridOperation attribute) (phenotypic.abc_.ImageCorrector attribute) (phenotypic.abc_.ImageDenoiser attribute) (phenotypic.abc_.ImageEnhancer attribute) (phenotypic.abc_.ImageOperation attribute) (phenotypic.abc_.MeasureFeatures attribute) (phenotypic.abc_.MorphologicalFiltering attribute) (phenotypic.abc_.ObjectDetector attribute) (phenotypic.abc_.ObjectRefiner attribute) (phenotypic.abc_.PostMeasurement attribute) (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.abc_.Smoothing attribute) (phenotypic.abc_.ThresholdDetector attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ErrorCutoffFinder attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute) (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.CaptureMetadata attribute) (phenotypic.correction.ColorCheckerProfile attribute) (phenotypic.correction.ColorCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.CropImage attribute) (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.correction.GridAligner attribute) (phenotypic.correction.PadImage attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.detect.CannyDetector attribute) (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.detect.CompositeDetector attribute) (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.FilFinderDetector attribute) (phenotypic.detect.HysteresisDetector attribute) (phenotypic.detect.InoculumDetector attribute) (phenotypic.detect.IsodataDetector attribute) (phenotypic.detect.LiDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.ManualGridPointDetector attribute) (phenotypic.detect.ManualPointDetector attribute) (phenotypic.detect.MeanDetector attribute) (phenotypic.detect.MinimumDetector attribute) (phenotypic.detect.OtsuDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SecondaryOtsuDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.detect.TriangleDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.detect.UserThreshold attribute) (phenotypic.detect.WatershedDetector attribute) (phenotypic.detect.YenDetector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.ContrastStretching attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.EnhanceLocalContrast attribute) (phenotypic.enhance.FlattenIllumination attribute) (phenotypic.enhance.FocusBlobLoG attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeLaplace attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.enhance.FocusEdgeSato attribute) (phenotypic.enhance.FocusEdgeSobel attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.ImageInverter attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.RankMedianEnhancer attribute) (phenotypic.enhance.SetDetectMode attribute) (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.enhance.SubtractRollingBall attribute) (phenotypic.enhance.SubtractWhiteTophat attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) (phenotypic.enhance.WhiteTophatEnhance attribute) (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.grid.GridApply attribute) (phenotypic.grid.ManualGridFinder attribute) (phenotypic.measure.MeasureBounds attribute) (phenotypic.measure.MeasureColor attribute) (phenotypic.measure.MeasureGridLinRegStats attribute) (phenotypic.measure.MeasureGridSpread attribute) (phenotypic.measure.MeasureIntensity attribute) (phenotypic.measure.MeasureNeighborDist attribute) (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureShape attribute) (phenotypic.measure.MeasureSize attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.measure.MeasureTexture attribute) (phenotypic.plotting.PlotColonyMetricOverTime attribute) (phenotypic.plotting.PlotDetectModes attribute) (phenotypic.plotting.PlotDiagnostics attribute) (phenotypic.plotting.PlotMeasTimeSeries attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) (phenotypic.refine.ExtractColonyCore attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.GridOversizedObjectRemover attribute) (phenotypic.refine.KeepNearestCenter attribute) (phenotypic.refine.KeepSectionLargest attribute) (phenotypic.refine.ManualRefine attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskFill attribute) (phenotypic.refine.MaskGradient attribute) (phenotypic.refine.MaskOpening attribute) (phenotypic.refine.MaskWhiteTophat attribute) (phenotypic.refine.MergeFragmentChains attribute) (phenotypic.refine.NearestNeighborMerger attribute) (phenotypic.refine.ReduceSectionsByLine attribute) (phenotypic.refine.RefineBySineFit attribute) (phenotypic.refine.RemoveBorderObjects attribute) (phenotypic.refine.RemoveByFeature attribute) (phenotypic.refine.RemoveGridOutliers attribute) (phenotypic.refine.RemoveLowCircularity attribute) (phenotypic.refine.SeparateObjects attribute) (phenotypic.refine.Skeletonize attribute) (phenotypic.refine.SmallObjectRemover attribute) (phenotypic.refine.SmallToLargeMerger attribute) (phenotypic.refine.Thinning attribute) (phenotypic.refine.TrimAsymmetry attribute) (phenotypic.sdk_.InputLayerMixin attribute) (phenotypic.sdk_.NormalizedOutputMixin attribute) (phenotypic.tune.Budget attribute) (phenotypic.tune.Categorical attribute) (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Evaluator attribute) (phenotypic.tune.Excluded attribute) (phenotypic.tune.Fixed attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.HeldOutConfig attribute) (phenotypic.tune.ImportanceReport attribute) (phenotypic.tune.InferredSearchSpace attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.Knob attribute) (phenotypic.tune.score.CompositeScorer attribute) (phenotypic.tune.score.GroundTruthMasks attribute) (phenotypic.tune.score.QCScorer attribute) (phenotypic.tune.score.ReferenceFreeScorer attribute) (phenotypic.tune.score.Scorer attribute) (phenotypic.tune.score.SupervisedScorer attribute) (phenotypic.tune.SearchSpace attribute) (phenotypic.tune.strategy.GridConfig attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) (phenotypic.tune.strategy.StrategyConfig attribute) (phenotypic.tune.Trial attribute) (phenotypic.tune.TuningSpec attribute) model_construct() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) model_copy() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) model_dump() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) model_dump_json() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) model_extra (phenotypic.abc_.BackgroundSubtraction property) (phenotypic.abc_.BaseOperation property) (phenotypic.abc_.ContrastAdjustment property) (phenotypic.abc_.FocusBlob property) (phenotypic.abc_.FocusEdge property) (phenotypic.abc_.GpuDetector property) (phenotypic.abc_.GridCorrector property) (phenotypic.abc_.GridFinder property) (phenotypic.abc_.GridMeasureFeatures property) (phenotypic.abc_.GridObjectDetector property) (phenotypic.abc_.GridObjectRefiner property) (phenotypic.abc_.GridOperation property) (phenotypic.abc_.ImageCorrector property) (phenotypic.abc_.ImageDenoiser property) (phenotypic.abc_.ImageEnhancer property) (phenotypic.abc_.ImageOperation property) (phenotypic.abc_.MeasureFeatures property) (phenotypic.abc_.MorphologicalFiltering property) (phenotypic.abc_.ObjectDetector property) (phenotypic.abc_.ObjectRefiner property) (phenotypic.abc_.PostMeasurement property) (phenotypic.abc_.PrefabPipeline property) (phenotypic.abc_.Smoothing property) (phenotypic.abc_.ThresholdDetector property) (phenotypic.analysis.EdgeCorrector property) (phenotypic.analysis.ErrorCutoffFinder property) (phenotypic.analysis.ExpectedVsDetectedCount property) (phenotypic.analysis.GridOccupancy property) (phenotypic.analysis.ICC property) (phenotypic.analysis.LinearCapAndLagModel property) (phenotypic.analysis.LinearLagModel property) (phenotypic.analysis.LogGrowthModel property) (phenotypic.analysis.MADOutlierRemover property) (phenotypic.analysis.MaxModifiedZScore property) (phenotypic.analysis.RelativeMAD property) (phenotypic.analysis.ReplicateAgreement property) (phenotypic.analysis.TukeyOutlierFraction property) (phenotypic.analysis.TukeyOutlierRemover property) (phenotypic.correction.BayesShrinkCorrector property) (phenotypic.correction.CaptureMetadata property) (phenotypic.correction.ColorCheckerProfile property) (phenotypic.correction.ColorCorrector property) (phenotypic.correction.ColorDenoise property) (phenotypic.correction.CropImage property) (phenotypic.correction.DenoiseBlockMatch property) (phenotypic.correction.GridAligner property) (phenotypic.correction.PadImage property) (phenotypic.correction.VisuShrinkCorrector property) (phenotypic.detect.CannyDetector property) (phenotypic.detect.ChanVeseDetector property) (phenotypic.detect.CompositeDetector property) (phenotypic.detect.FilamentousFungiDetector property) (phenotypic.detect.FilFinderDetector property) (phenotypic.detect.HysteresisDetector property) (phenotypic.detect.InoculumDetector property) (phenotypic.detect.IsodataDetector property) (phenotypic.detect.LiDetector property) (phenotypic.detect.MadHysteresisDetector property) (phenotypic.detect.ManualGridPointDetector property) (phenotypic.detect.ManualPointDetector property) (phenotypic.detect.MeanDetector property) (phenotypic.detect.MinimumDetector property) (phenotypic.detect.OtsuDetector property) (phenotypic.detect.RankOtsuDetector property) (phenotypic.detect.RoundPeaksDetector property) (phenotypic.detect.SecondaryOtsuDetector property) (phenotypic.detect.SinePeakDetector property) (phenotypic.detect.TriangleDetector property) (phenotypic.detect.TwoKFilamentousDetector property) (phenotypic.detect.UserThreshold property) (phenotypic.detect.WatershedDetector property) (phenotypic.detect.YenDetector property) (phenotypic.enhance.BayesShrinkEnhancer property) (phenotypic.enhance.BlurGauss property) (phenotypic.enhance.CompositeEnhance property) (phenotypic.enhance.ContrastGamma property) (phenotypic.enhance.ContrastLog property) (phenotypic.enhance.ContrastSigmoid property) (phenotypic.enhance.ContrastStretching property) (phenotypic.enhance.EnhanceBlockMatch property) (phenotypic.enhance.EnhanceLocalContrast property) (phenotypic.enhance.FlattenIllumination property) (phenotypic.enhance.FocusBlobLoG property) (phenotypic.enhance.FocusEdgeColorPhase property) (phenotypic.enhance.FocusEdgeFrangi property) (phenotypic.enhance.FocusEdgeHessian property) (phenotypic.enhance.FocusEdgeLaplace property) (phenotypic.enhance.FocusEdgeMeijering property) (phenotypic.enhance.FocusEdgeMonogenicPhase property) (phenotypic.enhance.FocusEdgePhase property) (phenotypic.enhance.FocusEdgeSato property) (phenotypic.enhance.FocusEdgeSobel property) (phenotypic.enhance.FocusEdgeTwoKPhase property) (phenotypic.enhance.GrayOpening property) (phenotypic.enhance.ImageInverter property) (phenotypic.enhance.LocalEdgeDenoise property) (phenotypic.enhance.MedianFilter property) (phenotypic.enhance.NonLocalMeansDenoiser property) (phenotypic.enhance.RankMedianEnhancer property) (phenotypic.enhance.SetDetectMode property) (phenotypic.enhance.SharpenEdgeGauss property) (phenotypic.enhance.StructureSmoothing property) (phenotypic.enhance.SubtractGaussian property) (phenotypic.enhance.SubtractOpening property) (phenotypic.enhance.SubtractRollingBall property) (phenotypic.enhance.SubtractWhiteTophat property) (phenotypic.enhance.VisuShrinkEnhancer property) (phenotypic.enhance.WhiteTophatEnhance property) (phenotypic.grid.AutoGridFinder property) (phenotypic.grid.CenteredAutoGridFinder property) (phenotypic.grid.GridApply property) (phenotypic.grid.ManualGridFinder property) (phenotypic.measure.MeasureBounds property) (phenotypic.measure.MeasureColor property) (phenotypic.measure.MeasureGridLinRegStats property) (phenotypic.measure.MeasureGridSpread property) (phenotypic.measure.MeasureIntensity property) (phenotypic.measure.MeasureNeighborDist property) (phenotypic.measure.MeasureOrientationZones property) (phenotypic.measure.MeasureShape property) (phenotypic.measure.MeasureSize property) (phenotypic.measure.MeasureSymmetricZones property) (phenotypic.measure.MeasureTexture property) (phenotypic.plotting.PlotColonyMetricOverTime property) (phenotypic.plotting.PlotDetectModes property) (phenotypic.plotting.PlotDiagnostics property) (phenotypic.plotting.PlotMeasTimeSeries property) (phenotypic.prefab.FilamentousFungiPipeline property) (phenotypic.prefab.GridSectionPipeline property) (phenotypic.prefab.HeavyOtsuPipeline property) (phenotypic.prefab.HeavyRoundPeaksPipeline property) (phenotypic.prefab.HeavyWatershedPipeline property) (phenotypic.prefab.RoundPeaksPipeline property) (phenotypic.prefab.SpImagerPipeline property) (phenotypic.refine.ExtractColonyCore property) (phenotypic.refine.GridAlignmentRefiner property) (phenotypic.refine.GridOversizedObjectRemover property) (phenotypic.refine.KeepNearestCenter property) (phenotypic.refine.KeepSectionLargest property) (phenotypic.refine.ManualRefine property) (phenotypic.refine.MaskClosing property) (phenotypic.refine.MaskDilation property) (phenotypic.refine.MaskErosion property) (phenotypic.refine.MaskFill property) (phenotypic.refine.MaskGradient property) (phenotypic.refine.MaskOpening property) (phenotypic.refine.MaskWhiteTophat property) (phenotypic.refine.MergeFragmentChains property) (phenotypic.refine.NearestNeighborMerger property) (phenotypic.refine.ReduceSectionsByLine property) (phenotypic.refine.RefineBySineFit property) (phenotypic.refine.RemoveBorderObjects property) (phenotypic.refine.RemoveByFeature property) (phenotypic.refine.RemoveGridOutliers property) (phenotypic.refine.RemoveLowCircularity property) (phenotypic.refine.SeparateObjects property) (phenotypic.refine.Skeletonize property) (phenotypic.refine.SmallObjectRemover property) (phenotypic.refine.SmallToLargeMerger property) (phenotypic.refine.Thinning property) (phenotypic.refine.TrimAsymmetry property) (phenotypic.sdk_.InputLayerMixin property) (phenotypic.sdk_.NormalizedOutputMixin property) (phenotypic.tune.Budget property) (phenotypic.tune.Categorical property) (phenotypic.tune.EvaluationResult property) (phenotypic.tune.Evaluator property) (phenotypic.tune.Excluded property) (phenotypic.tune.Fixed property) (phenotypic.tune.FloatRange property) (phenotypic.tune.HeldOutConfig property) (phenotypic.tune.ImportanceReport property) (phenotypic.tune.InferredSearchSpace property) (phenotypic.tune.IntRange property) (phenotypic.tune.Knob property) (phenotypic.tune.score.CompositeScorer property) (phenotypic.tune.score.GroundTruthMasks property) (phenotypic.tune.score.QCScorer property) (phenotypic.tune.score.ReferenceFreeScorer property) (phenotypic.tune.score.Scorer property) (phenotypic.tune.score.SupervisedScorer property) (phenotypic.tune.SearchSpace property) (phenotypic.tune.strategy.GridConfig property) (phenotypic.tune.strategy.OptunaConfig property) (phenotypic.tune.strategy.RandomConfig property) (phenotypic.tune.strategy.StrategyConfig property) (phenotypic.tune.Trial property) (phenotypic.tune.TuningSpec property) model_fields (phenotypic.abc_.BackgroundSubtraction attribute) (phenotypic.abc_.BaseOperation attribute) (phenotypic.abc_.ContrastAdjustment attribute) (phenotypic.abc_.FocusBlob attribute) (phenotypic.abc_.FocusEdge attribute) (phenotypic.abc_.GpuDetector attribute) (phenotypic.abc_.GridCorrector attribute) (phenotypic.abc_.GridFinder attribute) (phenotypic.abc_.GridMeasureFeatures attribute) (phenotypic.abc_.GridObjectDetector attribute) (phenotypic.abc_.GridObjectRefiner attribute) (phenotypic.abc_.GridOperation attribute) (phenotypic.abc_.ImageCorrector attribute) (phenotypic.abc_.ImageDenoiser attribute) (phenotypic.abc_.ImageEnhancer attribute) (phenotypic.abc_.ImageOperation attribute) (phenotypic.abc_.MeasureFeatures attribute) (phenotypic.abc_.MorphologicalFiltering attribute) (phenotypic.abc_.ObjectDetector attribute) (phenotypic.abc_.ObjectRefiner attribute) (phenotypic.abc_.PostMeasurement attribute) (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.abc_.Smoothing attribute) (phenotypic.abc_.ThresholdDetector attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ErrorCutoffFinder attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute) (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.CaptureMetadata attribute) (phenotypic.correction.ColorCheckerProfile attribute) (phenotypic.correction.ColorCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.CropImage attribute) (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.correction.GridAligner attribute) (phenotypic.correction.PadImage attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.detect.CannyDetector attribute) (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.detect.CompositeDetector attribute) (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.FilFinderDetector attribute) (phenotypic.detect.HysteresisDetector attribute) (phenotypic.detect.InoculumDetector attribute) (phenotypic.detect.IsodataDetector attribute) (phenotypic.detect.LiDetector attribute) (phenotypic.detect.MadHysteresisDetector attribute) (phenotypic.detect.ManualGridPointDetector attribute) (phenotypic.detect.ManualPointDetector attribute) (phenotypic.detect.MeanDetector attribute) (phenotypic.detect.MinimumDetector attribute) (phenotypic.detect.OtsuDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SecondaryOtsuDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.detect.TriangleDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.detect.UserThreshold attribute) (phenotypic.detect.WatershedDetector attribute) (phenotypic.detect.YenDetector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.ContrastStretching attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.EnhanceLocalContrast attribute) (phenotypic.enhance.FlattenIllumination attribute) (phenotypic.enhance.FocusBlobLoG attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeLaplace attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.enhance.FocusEdgeSato attribute) (phenotypic.enhance.FocusEdgeSobel attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.ImageInverter attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.RankMedianEnhancer attribute) (phenotypic.enhance.SetDetectMode attribute) (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.enhance.SubtractRollingBall attribute) (phenotypic.enhance.SubtractWhiteTophat attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) (phenotypic.enhance.WhiteTophatEnhance attribute) (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.grid.GridApply attribute) (phenotypic.grid.ManualGridFinder attribute) (phenotypic.measure.MeasureBounds attribute) (phenotypic.measure.MeasureColor attribute) (phenotypic.measure.MeasureGridLinRegStats attribute) (phenotypic.measure.MeasureGridSpread attribute) (phenotypic.measure.MeasureIntensity attribute) (phenotypic.measure.MeasureNeighborDist attribute) (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureShape attribute) (phenotypic.measure.MeasureSize attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.measure.MeasureTexture attribute) (phenotypic.plotting.PlotColonyMetricOverTime attribute) (phenotypic.plotting.PlotDetectModes attribute) (phenotypic.plotting.PlotDiagnostics attribute) (phenotypic.plotting.PlotMeasTimeSeries attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) (phenotypic.refine.ExtractColonyCore attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.GridOversizedObjectRemover attribute) (phenotypic.refine.KeepNearestCenter attribute) (phenotypic.refine.KeepSectionLargest attribute) (phenotypic.refine.ManualRefine attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskFill attribute) (phenotypic.refine.MaskGradient attribute) (phenotypic.refine.MaskOpening attribute) (phenotypic.refine.MaskWhiteTophat attribute) (phenotypic.refine.MergeFragmentChains attribute) (phenotypic.refine.NearestNeighborMerger attribute) (phenotypic.refine.ReduceSectionsByLine attribute) (phenotypic.refine.RefineBySineFit attribute) (phenotypic.refine.RemoveBorderObjects attribute) (phenotypic.refine.RemoveByFeature attribute) (phenotypic.refine.RemoveGridOutliers attribute) (phenotypic.refine.RemoveLowCircularity attribute) (phenotypic.refine.SeparateObjects attribute) (phenotypic.refine.Skeletonize attribute) (phenotypic.refine.SmallObjectRemover attribute) (phenotypic.refine.SmallToLargeMerger attribute) (phenotypic.refine.Thinning attribute) (phenotypic.refine.TrimAsymmetry attribute) (phenotypic.sdk_.InputLayerMixin attribute) (phenotypic.sdk_.NormalizedOutputMixin attribute) (phenotypic.tune.Budget attribute) (phenotypic.tune.Categorical attribute) (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Evaluator attribute) (phenotypic.tune.Excluded attribute) (phenotypic.tune.Fixed attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.HeldOutConfig attribute) (phenotypic.tune.ImportanceReport attribute) (phenotypic.tune.InferredSearchSpace attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.Knob attribute) (phenotypic.tune.score.CompositeScorer attribute) (phenotypic.tune.score.GroundTruthMasks attribute) (phenotypic.tune.score.QCScorer attribute) (phenotypic.tune.score.ReferenceFreeScorer attribute) (phenotypic.tune.score.Scorer attribute) (phenotypic.tune.score.SupervisedScorer attribute) (phenotypic.tune.SearchSpace attribute) (phenotypic.tune.strategy.GridConfig attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) (phenotypic.tune.strategy.StrategyConfig attribute) (phenotypic.tune.Trial attribute) (phenotypic.tune.TuningSpec attribute) model_fields_set (phenotypic.abc_.BackgroundSubtraction property) (phenotypic.abc_.BaseOperation property) (phenotypic.abc_.ContrastAdjustment property) (phenotypic.abc_.FocusBlob property) (phenotypic.abc_.FocusEdge property) (phenotypic.abc_.GpuDetector property) (phenotypic.abc_.GridCorrector property) (phenotypic.abc_.GridFinder property) (phenotypic.abc_.GridMeasureFeatures property) (phenotypic.abc_.GridObjectDetector property) (phenotypic.abc_.GridObjectRefiner property) (phenotypic.abc_.GridOperation property) (phenotypic.abc_.ImageCorrector property) (phenotypic.abc_.ImageDenoiser property) (phenotypic.abc_.ImageEnhancer property) (phenotypic.abc_.ImageOperation property) (phenotypic.abc_.MeasureFeatures property) (phenotypic.abc_.MorphologicalFiltering property) (phenotypic.abc_.ObjectDetector property) (phenotypic.abc_.ObjectRefiner property) (phenotypic.abc_.PostMeasurement property) (phenotypic.abc_.PrefabPipeline property) (phenotypic.abc_.Smoothing property) (phenotypic.abc_.ThresholdDetector property) (phenotypic.analysis.EdgeCorrector property) (phenotypic.analysis.ErrorCutoffFinder property) (phenotypic.analysis.ExpectedVsDetectedCount property) (phenotypic.analysis.GridOccupancy property) (phenotypic.analysis.ICC property) (phenotypic.analysis.LinearCapAndLagModel property) (phenotypic.analysis.LinearLagModel property) (phenotypic.analysis.LogGrowthModel property) (phenotypic.analysis.MADOutlierRemover property) (phenotypic.analysis.MaxModifiedZScore property) (phenotypic.analysis.RelativeMAD property) (phenotypic.analysis.ReplicateAgreement property) (phenotypic.analysis.TukeyOutlierFraction property) (phenotypic.analysis.TukeyOutlierRemover property) (phenotypic.correction.BayesShrinkCorrector property) (phenotypic.correction.CaptureMetadata property) (phenotypic.correction.ColorCheckerProfile property) (phenotypic.correction.ColorCorrector property) (phenotypic.correction.ColorDenoise property) (phenotypic.correction.CropImage property) (phenotypic.correction.DenoiseBlockMatch property) (phenotypic.correction.GridAligner property) (phenotypic.correction.PadImage property) (phenotypic.correction.VisuShrinkCorrector property) (phenotypic.detect.CannyDetector property) (phenotypic.detect.ChanVeseDetector property) (phenotypic.detect.CompositeDetector property) (phenotypic.detect.FilamentousFungiDetector property) (phenotypic.detect.FilFinderDetector property) (phenotypic.detect.HysteresisDetector property) (phenotypic.detect.InoculumDetector property) (phenotypic.detect.IsodataDetector property) (phenotypic.detect.LiDetector property) (phenotypic.detect.MadHysteresisDetector property) (phenotypic.detect.ManualGridPointDetector property) (phenotypic.detect.ManualPointDetector property) (phenotypic.detect.MeanDetector property) (phenotypic.detect.MinimumDetector property) (phenotypic.detect.OtsuDetector property) (phenotypic.detect.RankOtsuDetector property) (phenotypic.detect.RoundPeaksDetector property) (phenotypic.detect.SecondaryOtsuDetector property) (phenotypic.detect.SinePeakDetector property) (phenotypic.detect.TriangleDetector property) (phenotypic.detect.TwoKFilamentousDetector property) (phenotypic.detect.UserThreshold property) (phenotypic.detect.WatershedDetector property) (phenotypic.detect.YenDetector property) (phenotypic.enhance.BayesShrinkEnhancer property) (phenotypic.enhance.BlurGauss property) (phenotypic.enhance.CompositeEnhance property) (phenotypic.enhance.ContrastGamma property) (phenotypic.enhance.ContrastLog property) (phenotypic.enhance.ContrastSigmoid property) (phenotypic.enhance.ContrastStretching property) (phenotypic.enhance.EnhanceBlockMatch property) (phenotypic.enhance.EnhanceLocalContrast property) (phenotypic.enhance.FlattenIllumination property) (phenotypic.enhance.FocusBlobLoG property) (phenotypic.enhance.FocusEdgeColorPhase property) (phenotypic.enhance.FocusEdgeFrangi property) (phenotypic.enhance.FocusEdgeHessian property) (phenotypic.enhance.FocusEdgeLaplace property) (phenotypic.enhance.FocusEdgeMeijering property) (phenotypic.enhance.FocusEdgeMonogenicPhase property) (phenotypic.enhance.FocusEdgePhase property) (phenotypic.enhance.FocusEdgeSato property) (phenotypic.enhance.FocusEdgeSobel property) (phenotypic.enhance.FocusEdgeTwoKPhase property) (phenotypic.enhance.GrayOpening property) (phenotypic.enhance.ImageInverter property) (phenotypic.enhance.LocalEdgeDenoise property) (phenotypic.enhance.MedianFilter property) (phenotypic.enhance.NonLocalMeansDenoiser property) (phenotypic.enhance.RankMedianEnhancer property) (phenotypic.enhance.SetDetectMode property) (phenotypic.enhance.SharpenEdgeGauss property) (phenotypic.enhance.StructureSmoothing property) (phenotypic.enhance.SubtractGaussian property) (phenotypic.enhance.SubtractOpening property) (phenotypic.enhance.SubtractRollingBall property) (phenotypic.enhance.SubtractWhiteTophat property) (phenotypic.enhance.VisuShrinkEnhancer property) (phenotypic.enhance.WhiteTophatEnhance property) (phenotypic.grid.AutoGridFinder property) (phenotypic.grid.CenteredAutoGridFinder property) (phenotypic.grid.GridApply property) (phenotypic.grid.ManualGridFinder property) (phenotypic.measure.MeasureBounds property) (phenotypic.measure.MeasureColor property) (phenotypic.measure.MeasureGridLinRegStats property) (phenotypic.measure.MeasureGridSpread property) (phenotypic.measure.MeasureIntensity property) (phenotypic.measure.MeasureNeighborDist property) (phenotypic.measure.MeasureOrientationZones property) (phenotypic.measure.MeasureShape property) (phenotypic.measure.MeasureSize property) (phenotypic.measure.MeasureSymmetricZones property) (phenotypic.measure.MeasureTexture property) (phenotypic.plotting.PlotColonyMetricOverTime property) (phenotypic.plotting.PlotDetectModes property) (phenotypic.plotting.PlotDiagnostics property) (phenotypic.plotting.PlotMeasTimeSeries property) (phenotypic.prefab.FilamentousFungiPipeline property) (phenotypic.prefab.GridSectionPipeline property) (phenotypic.prefab.HeavyOtsuPipeline property) (phenotypic.prefab.HeavyRoundPeaksPipeline property) (phenotypic.prefab.HeavyWatershedPipeline property) (phenotypic.prefab.RoundPeaksPipeline property) (phenotypic.prefab.SpImagerPipeline property) (phenotypic.refine.ExtractColonyCore property) (phenotypic.refine.GridAlignmentRefiner property) (phenotypic.refine.GridOversizedObjectRemover property) (phenotypic.refine.KeepNearestCenter property) (phenotypic.refine.KeepSectionLargest property) (phenotypic.refine.ManualRefine property) (phenotypic.refine.MaskClosing property) (phenotypic.refine.MaskDilation property) (phenotypic.refine.MaskErosion property) (phenotypic.refine.MaskFill property) (phenotypic.refine.MaskGradient property) (phenotypic.refine.MaskOpening property) (phenotypic.refine.MaskWhiteTophat property) (phenotypic.refine.MergeFragmentChains property) (phenotypic.refine.NearestNeighborMerger property) (phenotypic.refine.ReduceSectionsByLine property) (phenotypic.refine.RefineBySineFit property) (phenotypic.refine.RemoveBorderObjects property) (phenotypic.refine.RemoveByFeature property) (phenotypic.refine.RemoveGridOutliers property) (phenotypic.refine.RemoveLowCircularity property) (phenotypic.refine.SeparateObjects property) (phenotypic.refine.Skeletonize property) (phenotypic.refine.SmallObjectRemover property) (phenotypic.refine.SmallToLargeMerger property) (phenotypic.refine.Thinning property) (phenotypic.refine.TrimAsymmetry property) (phenotypic.sdk_.InputLayerMixin property) (phenotypic.sdk_.NormalizedOutputMixin property) (phenotypic.tune.Budget property) (phenotypic.tune.Categorical property) (phenotypic.tune.EvaluationResult property) (phenotypic.tune.Evaluator property) (phenotypic.tune.Excluded property) (phenotypic.tune.Fixed property) (phenotypic.tune.FloatRange property) (phenotypic.tune.HeldOutConfig property) (phenotypic.tune.ImportanceReport property) (phenotypic.tune.InferredSearchSpace property) (phenotypic.tune.IntRange property) (phenotypic.tune.Knob property) (phenotypic.tune.score.CompositeScorer property) (phenotypic.tune.score.GroundTruthMasks property) (phenotypic.tune.score.QCScorer property) (phenotypic.tune.score.ReferenceFreeScorer property) (phenotypic.tune.score.Scorer property) (phenotypic.tune.score.SupervisedScorer property) (phenotypic.tune.SearchSpace property) (phenotypic.tune.strategy.GridConfig property) (phenotypic.tune.strategy.OptunaConfig property) (phenotypic.tune.strategy.RandomConfig property) (phenotypic.tune.strategy.StrategyConfig property) (phenotypic.tune.Trial property) (phenotypic.tune.TuningSpec property) model_func() (phenotypic.analysis.LinearCapAndLagModel static method) (phenotypic.analysis.LinearLagModel static method) (phenotypic.analysis.LogGrowthModel static method) model_json_schema() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) MODEL_METRICS (class in phenotypic.schema) model_parametrized_name() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) model_post_init() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ErrorCutoffFinder method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.CaptureMetadata method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.InputLayerMixin method) (phenotypic.sdk_.NormalizedOutputMixin method) (phenotypic.tune.Budget method) (phenotypic.tune.Categorical method) (phenotypic.tune.EvaluationResult method) (phenotypic.tune.Evaluator method) (phenotypic.tune.Excluded method) (phenotypic.tune.Fixed method) (phenotypic.tune.FloatRange method) (phenotypic.tune.HeldOutConfig method) (phenotypic.tune.ImportanceReport method) (phenotypic.tune.InferredSearchSpace method) (phenotypic.tune.IntRange method) (phenotypic.tune.Knob method) (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.GroundTruthMasks method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) (phenotypic.tune.SearchSpace method) (phenotypic.tune.strategy.GridConfig method) (phenotypic.tune.strategy.OptunaConfig method) (phenotypic.tune.strategy.RandomConfig method) (phenotypic.tune.strategy.StrategyConfig method) (phenotypic.tune.Trial method) (phenotypic.tune.TuningSpec method) model_rebuild() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) model_validate() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) model_validate_json() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) model_validate_strings() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) module phenotypic ModulePath (class in phenotypic.sdk_) morph_close_radius (phenotypic.refine.ExtractColonyCore attribute) morph_open_radius (phenotypic.refine.ExtractColonyCore attribute) MorphologicalFiltering (class in phenotypic.abc_) MSE (phenotypic.schema.MODEL_METRICS attribute) mu (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.detect.ChanVeseDetector attribute) mult (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) multi_objective (phenotypic.tune.score.CompositeScorer attribute) mycelium N N0_FIT (phenotypic.schema.LOG_GROWTH_MODEL attribute) n_angular_bins (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.TrimAsymmetry attribute) n_annuli (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.TrimAsymmetry attribute) n_components (phenotypic.refine.ExtractColonyCore attribute) n_excluded (phenotypic.tune.InferredSearchSpace property) n_images (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) n_iter (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskOpening attribute) n_jobs (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute), [1] (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute), [1] n_knobs (phenotypic.tune.InferredSearchSpace property) n_needs_review (phenotypic.tune.InferredSearchSpace property) n_orient (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgePhase attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) n_pitch_samples (phenotypic.grid.CenteredAutoGridFinder attribute) n_scale (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) n_trials (phenotypic.tune.Budget attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) name (phenotypic.abc_.DetectionMode property) (phenotypic.abc_.plotting.FigureSpec attribute), [1] (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) NAME (phenotypic.sdk_.ChunkManifestKey attribute) name (phenotypic.sdk_.exceptions_.DataIntegrityError attribute) (phenotypic.sdk_.exceptions_.EmptyImageError attribute) (phenotypic.sdk_.exceptions_.IllegalElementAssignmentError attribute) (phenotypic.sdk_.exceptions_.ImmutableComponentError attribute) (phenotypic.sdk_.exceptions_.InvalidHsvSchemaError attribute) (phenotypic.sdk_.exceptions_.NoArrayError attribute) (phenotypic.sdk_.exceptions_.NoComponentError attribute) (phenotypic.sdk_.exceptions_.NoImageDataError attribute) (phenotypic.sdk_.exceptions_.NoObjectsError attribute) (phenotypic.sdk_.exceptions_.ObjectNotFoundError attribute) (phenotypic.sdk_.exceptions_.OperationIntegrityError attribute) (phenotypic.sdk_.exceptions_.UuidAssignmentError attribute) (phenotypic.sdk_.exceptions_.UUIDReassignmentError attribute) (phenotypic.sdk_.HDF attribute), [1] named_analysis_csv_path() (in module phenotypic.sdk_) named_analysis_parquet_path() (in module phenotypic.sdk_) named_analysis_paths() (in module phenotypic.sdk_) nansafe (phenotypic.enhance.SubtractRollingBall attribute) napari() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.refine.ManualRefine method) nbytes (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor property) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale property) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap property) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask property) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB property) ncols (phenotypic.abc_.GridFinder attribute) (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.grid.ManualGridFinder attribute), [1] (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) NCOLS (phenotypic.sdk_.JobMetadataKey attribute) ndim (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor property) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale property) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap property) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask property) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB property) NearestNeighborMerger (class in phenotypic.refine) needs_review (phenotypic.tune.InferredSearchSpace property) (phenotypic.tune.Knob attribute) NEIGHBOR_DIST (class in phenotypic.schema) nested (phenotypic.gui.builder._state.BlockNode attribute), [1] NEW_VAL (phenotypic.schema.EDGE_CORRECTION attribute) NEXT_CHUNK_ID (phenotypic.sdk_.ChunkStateKey attribute) NITROGEN_SOURCE (phenotypic.schema.CONDITION_METADATA attribute) NO_QC (phenotypic.sdk_.JobMetadataKey attribute) NoArrayError NoComponentError NoImageDataError noise_method (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) noise_radius (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) NoiseMetrics (class in phenotypic.util) None (phenotypic.abc_.FootprintMixin attribute) (phenotypic.abc_.ImageOperation attribute) (phenotypic.abc_.ObjectDetector attribute) NONE (phenotypic.sdk_.constants_.IMAGE_MODE attribute) None (phenotypic.sdk_.FootprintMixin attribute) NonLocalMeansDenoiser (class in phenotypic.enhance) nonuniformity_ratio (phenotypic.util.BackgroundMetrics attribute) NoObjectsError NoOpChannel (class in phenotypic.tune.strategy) NoOutputError norm (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.enhance.ContrastGamma attribute) (phenotypic.enhance.ContrastLog attribute) (phenotypic.enhance.ContrastSigmoid attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeLaplace attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) (phenotypic.sdk_.NormalizedOutputMixin attribute) NormalizedOutputMixin (class in phenotypic.sdk_) NormControlMixin (class in phenotypic.sdk_) normed() (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) NOTES (phenotypic.schema.EXPERIMENT_METADATA attribute) nrows (phenotypic.abc_.GridFinder attribute) (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.grid.ManualGridFinder attribute), [1] (phenotypic.gui.builder._state._DagBuilderScope attribute), [1] (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) NROWS (phenotypic.sdk_.JobMetadataKey attribute) NUM_BRANCHES (phenotypic.schema.RADIAL_EXPANSION attribute) num_iter (phenotypic.enhance.StructureSmoothing attribute) NUM_MEMBERS (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) num_objects (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor property) NUM_OUTLIERS (phenotypic.schema.QUALITY_TUKEY attribute) NUM_RATERS (phenotypic.schema.QUALITY_ICC attribute) NUM_REPLICATES (phenotypic.schema.QUALITY_SE attribute) NUM_SAMPLES (phenotypic.schema.MODEL_METRICS attribute) num_scales (phenotypic.enhance.FocusBlobLoG attribute) NUM_SUBJECTS (phenotypic.schema.QUALITY_ICC attribute) number (phenotypic.tune.Trial attribute) O obj (phenotypic.sdk_.exceptions_.DataIntegrityError attribute) (phenotypic.sdk_.exceptions_.EmptyImageError attribute) (phenotypic.sdk_.exceptions_.IllegalElementAssignmentError attribute) (phenotypic.sdk_.exceptions_.ImmutableComponentError attribute) (phenotypic.sdk_.exceptions_.InvalidHsvSchemaError attribute) (phenotypic.sdk_.exceptions_.NoArrayError attribute) (phenotypic.sdk_.exceptions_.NoComponentError attribute) (phenotypic.sdk_.exceptions_.NoImageDataError attribute) (phenotypic.sdk_.exceptions_.NoObjectsError attribute) (phenotypic.sdk_.exceptions_.ObjectNotFoundError attribute) (phenotypic.sdk_.exceptions_.OperationIntegrityError attribute) (phenotypic.sdk_.exceptions_.UuidAssignmentError attribute) (phenotypic.sdk_.exceptions_.UUIDReassignmentError attribute) OBJECT (class in phenotypic.schema) (phenotypic.sdk_.constants_.IMAGE_TYPES attribute) OBJECT_SPREAD (phenotypic.schema.GRID_SPREAD attribute) ObjectDetector (class in phenotypic.abc_) objective_names() (phenotypic.tune.score.CompositeScorer method) objectives (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) ObjectMap (class in phenotypic._core._image_parts.accessors._objmap_accessor) ObjectMask (class in phenotypic._core._image_parts.accessors._objmask_accessor) ObjectNotFoundError ObjectRefiner (class in phenotypic.abc_) objects (phenotypic.Image property) ObjectsAccessor (class in phenotypic._core._image_parts.accessors._objects_accessor) objmap (phenotypic.Image property) objmask (phenotypic.Image property) on (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MADOutlierRemover attribute), [1] (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) (phenotypic.analysis.TukeyOutlierRemover attribute), [1] (phenotypic.plotting.PlotColonyMetricOverTime attribute) open_port_menu (phenotypic.gui.builder._state._DagBuilderState attribute) OperationFailedError OperationIntegrityError ops (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.detect.CompositeDetector attribute) (phenotypic.enhance.CompositeEnhance attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) optimal_scale (phenotypic.util.StructureMetrics attribute) optimize() (phenotypic.tune.TuningEngine method) options (phenotypic.abc_.plotting.Control attribute) OptunaConfig (class in phenotypic.tune.strategy) ORANGE_PCT (phenotypic.schema.ColorComposition attribute) ORCHESTRATION_EPOCH (phenotypic.sdk_.JobMetadataKey attribute) order (phenotypic.abc_.plotting.FigureSpec attribute), [1] order_measurement_columns() (in module phenotypic.sdk_) ORGANISM (phenotypic.schema.GENETIC_METADATA attribute) ORIENTATION (phenotypic.schema.SHAPE attribute) ORIENTATION_ZONE_DIAGNOSTIC (class in phenotypic.schema) ORIENTATION_ZONE_PRIMARY (class in phenotypic.schema) ORIENTATION_ZONES (in module phenotypic.schema) origin (phenotypic.refine.MaskFill attribute) OTHER (phenotypic.schema.ErrorCategory attribute) OtsuDetector (class in phenotypic.detect) outlier_sigma (phenotypic.correction.ColorCheckerProfile attribute) output (phenotypic.detect.FilFinderDetector attribute) (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) OUTPUT_DIR (phenotypic.sdk_.ProcessingStateKey attribute) output_illuminant (phenotypic.correction.ColorCorrector attribute) output_kind (phenotypic.abc_.GpuDetector attribute) output_root (phenotypic.sdk_.BundleLayout attribute), [1] OutputValueError outward_min_run_rings (phenotypic.measure.MeasureOrientationZones attribute) outward_peak_window_rings (phenotypic.measure.MeasureOrientationZones attribute) OUTWARD_ROTATION_ABSOLUTE_AREA_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_ABSOLUTE_AREA_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_ABSOLUTE_AREA_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_CONSISTENCY_DENSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_CONSISTENCY_OVERALL (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_CONSISTENCY_SPARSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_MEDIAN_MAGNITUDE_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_MEDIAN_MAGNITUDE_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_MEDIAN_MAGNITUDE_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_MEDIAN_RESULTANT_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_MEDIAN_RESULTANT_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_MEDIAN_RESULTANT_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_NET_DENSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_NET_OVERALL (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_NET_SPARSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_P90_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_P90_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_P90_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_P95_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_P95_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_P95_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RATE_DENSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_RATE_GRADIENT_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RATE_GRADIENT_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RATE_GRADIENT_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RATE_OVERALL (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_RATE_SPARSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_RAW_PEAK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RAW_PEAK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RAW_PEAK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RING_SUPPORT_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RING_SUPPORT_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RING_SUPPORT_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RUN_SPAN_SUPPORT_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RUN_SPAN_SUPPORT_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_RUN_SPAN_SUPPORT_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_SUSTAINED_PEAK_DENSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_SUSTAINED_PEAK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_SUSTAINED_PEAK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) OUTWARD_ROTATION_TOTAL_VARIATION_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_TOTAL_VARIATION_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_ROTATION_TOTAL_VARIATION_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_TURNING_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_TURNING_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) OUTWARD_TURNING_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) overlay_manifest_path() (in module phenotypic.sdk_) overlay_path() (phenotypic.sdk_.BundleLayout method) overlays_dir() (in module phenotypic.sdk_) (phenotypic.sdk_.BundleLayout method) OVERSEGMENTED (phenotypic.schema.ErrorCategory attribute) owns_header() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) P p1 (phenotypic.util.ContrastMetrics attribute) p99 (phenotypic.util.ContrastMetrics attribute) pad_checker (phenotypic.correction.ColorCheckerProfile attribute) PadImage (class in phenotypic.correction) page_by (phenotypic.plotting.PlotMeasTimeSeries attribute) pages (phenotypic.abc_.plotting.PlotOutput attribute) pair (phenotypic.abc_.MeasurementInfo attribute), [1] (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute), [1] (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) param_importance_path() (in module phenotypic.sdk_) param_importances() (phenotypic.tune.JournalStudyStore method) params (phenotypic.gui.builder._state.BlockNode attribute), [1] (phenotypic.tune.Trial attribute) PARENT_IMAGE_NAME (phenotypic.schema.METADATA attribute) PARENT_UUID (phenotypic.schema.METADATA attribute) pareto_best_pipeline_path() (in module phenotypic.sdk_) pareto_dir() (in module phenotypic.sdk_) pareto_front() (phenotypic.tune.JournalStudyStore method) pareto_front_parquet_path() (in module phenotypic.sdk_) pareto_importance_path() (in module phenotypic.sdk_) parquet (phenotypic.sdk_.AnalysisArtifactPaths attribute) parse_file() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) parse_job_id() (in module phenotypic.sdk_.slurm) parse_obj() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) parse_qualified_header() (in module phenotypic.schema) parse_raw() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) parse_slurm_time() (in module phenotypic.sdk_.slurm) partition() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) patch_size (phenotypic.enhance.NonLocalMeansDenoiser attribute) path_dilation_radius (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) paths_fingerprint() (in module phenotypic.sdk_) pct_min_wavelength (phenotypic.detect.FilamentousFungiDetector attribute) pct_n_orient (phenotypic.detect.FilamentousFungiDetector attribute) peak_prominence (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) peak_response (phenotypic.util.StructureMetrics attribute) pelt_penalty (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.TrimAsymmetry attribute) PENDING (phenotypic.sdk_.DashboardManifestKey attribute) pending_aux_replacement (phenotypic.gui.builder._state._DagBuilderState attribute), [1] PENDING_CHUNKS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) pending_delete_block_id (phenotypic.gui.builder._state._DagBuilderState attribute), [1] PERIMETER (phenotypic.schema.SHAPE attribute) PersistencePairsResult (class in phenotypic.analysis) PH (phenotypic.schema.CONDITION_METADATA attribute) phenotypic module phenotypic_cache_dir() (in module phenotypic.sdk_) phenotypic_cache_pipeline_json_path() (in module phenotypic.sdk_) PHENOTYPIC_CLASS (phenotypic.sdk_.HdfAttr attribute) PHENOTYPIC_METADATA_KEY (phenotypic.sdk_.constants_.IO attribute) phenotypic_version (phenotypic.tune.TuningSpec attribute) PhenoTypicError PhtPlot (class in phenotypic.abc_.plotting) PINK_PCT (phenotypic.schema.ColorComposition attribute) PIPE_STATUS (class in phenotypic.sdk_.constants_) pipeline (phenotypic.tune.TuningSpec attribute) PIPELINE_CLASS_NAME (in module phenotypic.gui.builder._state) pipeline_config_path (phenotypic.sdk_.BundleLayout property) pipeline_json_path() (in module phenotypic.sdk_) PIPELINE_PATH (phenotypic.sdk_.JobMetadataKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) pipeline_publication_lock() (in module phenotypic.sdk_) pipeline_publication_lock_path() (in module phenotypic.sdk_) PLASMID (phenotypic.schema.GENETIC_METADATA attribute) PLATE_ID (phenotypic.schema.PLATE_METADATA attribute) PLATE_METADATA (class in phenotypic.schema) PLOIDY (phenotypic.schema.GENETIC_METADATA attribute) PlotAnalysis (class in phenotypic.abc_.plotting) PlotColonyMetricOverTime (class in phenotypic.plotting) PlotDetectModes (class in phenotypic.plotting) PlotDiagnostics (class in phenotypic.plotting) PlotImage (class in phenotypic.abc_.plotting) PlotMeas (class in phenotypic.abc_.plotting) PlotMeasTimeSeries (class in phenotypic.plotting) PlotOutput (class in phenotypic.abc_.plotting) PlotPage (class in phenotypic.abc_.plotting) PlotQc (class in phenotypic.abc_.plotting) plots (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) plots_dir (phenotypic.sdk_.BundleLayout property) plots_dir() (in module phenotypic.sdk_) PNG_FILE_EXTENSIONS (phenotypic.sdk_.constants_.IO attribute) PointPickerWidget (class in phenotypic.sdk_.napari_) pop() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) popitem() (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) post (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) POST (phenotypic.sdk_.ModulePath attribute) PostMeasurement (class in phenotypic.abc_) preallocate_frame_layout() (phenotypic.sdk_.HDF static method) preallocate_series_layout() (phenotypic.sdk_.HDF static method) PRED_CC (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) PRED_RR (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) prefab pipeline PrefabPipeline (class in phenotypic.abc_) prelude (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) preserve_range (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.SubtractGaussian attribute) preview_modes() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) primary (phenotypic.abc_.plotting.FigureSpec attribute), [1] PRIVATE_UNTIL_DATE (phenotypic.schema.STUDY_METADATA attribute) PROCESSED (phenotypic.sdk_.constants_.PIPE_STATUS attribute) PROCESSING_GENERATION (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) processing_report_html_path() (in module phenotypic.sdk_) processing_state_path() (in module phenotypic.sdk_) ProcessingStateKey (class in phenotypic.sdk_) profile (phenotypic.correction.ColorCorrector attribute) progress_dir() (in module phenotypic.sdk_) PROJECT (phenotypic.schema.EXPERIMENT_METADATA attribute) props (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor property) PROTECTED_METADATA_SUBGROUP_KEY (phenotypic.sdk_.HDF attribute) PROTOCOL (phenotypic.schema.EXPERIMENT_METADATA attribute) prune (phenotypic.tune.strategy.OptunaConfig attribute) prune_criteria (phenotypic.detect.FilFinderDetector attribute) prune_saturated (phenotypic.analysis.LinearLagModel attribute) pruned (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) PruningChannel (class in phenotypic.tune.strategy) PUBLIC_METADATA_SUBGROUP_KEY (phenotypic.sdk_.HDF attribute) PUBLICATIONS (phenotypic.schema.STUDY_METADATA attribute) PURPLE_PCT (phenotypic.schema.ColorComposition attribute) pvalue (phenotypic.analysis.EdgeCorrector attribute) Q Q1_INTENSITY (phenotypic.schema.INTENSITY attribute) Q3_INTENSITY (phenotypic.schema.INTENSITY attribute) qc (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) qc_dir (phenotypic.sdk_.BundleLayout property) qc_dir() (in module phenotypic.sdk_) qc_duckdb (phenotypic.sdk_.BundleLayout property) qc_duckdb_path() (in module phenotypic.sdk_) qc_review_state_path (phenotypic.sdk_.BundleLayout property) qc_review_state_path() (in module phenotypic.sdk_) QCScorer (class in phenotypic.tune.score) qualified_header() (in module phenotypic.schema) QUALITY_CHECK (class in phenotypic.schema) QUALITY_COUNT (class in phenotypic.schema) QUALITY_ICC (class in phenotypic.schema) QUALITY_MAD (class in phenotypic.schema) QUALITY_OCCUPANCY (class in phenotypic.schema) QUALITY_SE (class in phenotypic.schema) QUALITY_TUKEY (class in phenotypic.schema) QUALITY_ZMAX (class in phenotypic.schema) QualityScores (class in phenotypic.util) quant_lvl (phenotypic.measure.MeasureTexture attribute) quiver_block (phenotypic.measure.MeasureOrientationZones attribute) R R2 (phenotypic.schema.MODEL_METRICS attribute) R_FIT (phenotypic.schema.LOG_GROWTH_MODEL attribute) RADIAL_EXPANSION (class in phenotypic.schema) radial_ring_width (phenotypic.measure.MeasureOrientationZones attribute) RADIAL_SECTOR_SUPPORT_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) RADIAL_SECTOR_SUPPORT_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) RADIAL_SECTOR_SUPPORT_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) RADIAL_TILT_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) RADIAL_TILT_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) RADIAL_TILT_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) radius (phenotypic.enhance.SharpenEdgeGauss attribute) (phenotypic.enhance.SubtractRollingBall attribute) random_seed (phenotypic.measure.MeasureColor attribute) RandomConfig (class in phenotypic.tune.strategy) RandomStrategy (class in phenotypic.tune.strategy) RankMedianEnhancer (class in phenotypic.enhance) RankOtsuDetector (class in phenotypic.detect) rater_label (phenotypic.analysis.ICC attribute) RAW_FILE_EXTENSIONS (phenotypic.sdk_.constants_.IO attribute) read_run_manifest() (in module phenotypic.sdk_) reader() (phenotypic.sdk_.HDF method) readme_md_path() (in module phenotypic.sdk_) reason (phenotypic.tune.Excluded attribute) recommendation (phenotypic.tune.ScreeningResult attribute) recompile_dir() (in module phenotypic.sdk_) recompile_status_dir() (in module phenotypic.sdk_) reconnect_scope (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) reconnect_strategy (phenotypic.detect.FilamentousFungiDetector attribute) reconnection_tolerance (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) RED_PCT (phenotypic.schema.ColorComposition attribute) reduced_space (phenotypic.tune.ScreeningResult attribute) ReduceSectionsByLine (class in phenotypic.refine) ReferenceFreeScorer (class in phenotypic.tune.score) RefineBySineFit (class in phenotypic.refine) region_metric (phenotypic.tune.score.SupervisedScorer attribute) region_term_name (phenotypic.tune.score.SupervisedScorer attribute) register() (phenotypic.sdk_.register.AnalysisPluginRegistry class method) (phenotypic.sdk_.register.BaseRegistry class method) register_analysis() (in module phenotypic.sdk_.register) register_detection_mode() (in module phenotypic.abc_) register_result() (phenotypic.tune.strategy.GridStrategy method) (phenotypic.tune.strategy.RandomStrategy method) (phenotypic.tune.strategy.SearchStrategy method) relabel (phenotypic.detect.WatershedDetector attribute) relabel() (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) relative_drop (phenotypic.tune.GeneralizationReport attribute) relative_intensity_threshold (phenotypic.detect.FilFinderDetector attribute) RelativeMAD (class in phenotypic.analysis) rembi_manifest_path() (in module phenotypic.sdk_) REMBI_MODULE (class in phenotypic.schema) rembi_module (phenotypic.schema.Entry attribute) rembi_module() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) rembi_module_override (phenotypic.abc_.MeasurementInfo attribute) (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute) (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) remove_noise (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) RemoveBorderObjects (class in phenotypic.refine) RemoveByFeature (class in phenotypic.refine) RemoveGridOutliers (class in phenotypic.refine) RemoveLowCircularity (class in phenotypic.refine) removeprefix() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) removesuffix() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) render() (phenotypic.abc_.plotting.BoundFigures method) (phenotypic.sdk_.slurm.SlurmArrayScriptSpec method) render_error_analysis_html() (in module phenotypic.analysis) render_error_analysis_report() (in module phenotypic.analysis) replace() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) replicate_by (phenotypic.plotting.PlotMeasTimeSeries attribute) replicate_groupby (phenotypic.tune.score.ReferenceFreeScorer attribute) replicate_label (phenotypic.plotting.PlotColonyMetricOverTime attribute) ReplicateAgreement (class in phenotypic.analysis) report() (phenotypic.abc_.plotting.PhtPlot method) (phenotypic.abc_.plotting.PlotAnalysis method) (phenotypic.abc_.plotting.PlotImage method) (phenotypic.abc_.plotting.PlotMeas method) (phenotypic.abc_.plotting.PlotQc method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.grid.AutoGridFinder method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.plotting.PlotColonyMetricOverTime method) (phenotypic.plotting.PlotDetectModes method) (phenotypic.plotting.PlotDiagnostics method) (phenotypic.plotting.PlotMeasTimeSeries method) (phenotypic.tune.strategy.NoOpChannel method) (phenotypic.tune.strategy.PruningChannel method) requeue (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) requires_rgb (phenotypic.abc_.DetectionMode property) rescale_sigma (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) reset (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) reset() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) reset_enh_matrix (phenotypic.grid.GridApply attribute) RESIDUAL_ERR (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) residual_fraction (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) RESOLUTION (phenotypic.schema.ACQUISITION_METADATA attribute) resolve_best_pipeline_path() (in module phenotypic.sdk_) resolve_event_log_path() (in module phenotypic.sdk_) resolve_execution_mode() (in module phenotypic.sdk_) resolve_manifest_json_path() (in module phenotypic.sdk_) resolve_pipeline_config_path() (in module phenotypic.sdk_) resolve_processing_state_path() (in module phenotypic.sdk_) resolve_progress_dir() (in module phenotypic.sdk_) resolve_qc_dir() (in module phenotypic.sdk_) resolve_split_assignment_path() (in module phenotypic.sdk_) resolve_study_db_path() (in module phenotypic.sdk_) resolve_tuning_spec_path() (in module phenotypic.sdk_) resolved_kind (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) resolved_pipeline_config_path (phenotypic.sdk_.BundleLayout property) resolved_rembi_module (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) resolved_tier (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) response_floor (phenotypic.grid.CenteredAutoGridFinder attribute) results() (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) results_dir (phenotypic.sdk_.BundleLayout property) results_dir() (in module phenotypic.sdk_) rfind() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) rgb (phenotypic.Image property) RGB (phenotypic.sdk_.constants_.IMAGE_MODE attribute) RGB_OR_BGR (phenotypic.sdk_.constants_.IMAGE_MODE attribute) RGBA (phenotypic.sdk_.constants_.IMAGE_MODE attribute) RGBA_OR_BGRA (phenotypic.sdk_.constants_.IMAGE_MODE attribute) rho (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.tune.score.CompositeScorer attribute) ridge_lambda (phenotypic.correction.ColorCheckerProfile attribute) ridge_method (phenotypic.util.StructureMetrics attribute) ridge_responses (phenotypic.util.StructureMetrics attribute) right (phenotypic.correction.CropImage attribute) (phenotypic.correction.PadImage attribute) RIGHT_DISTANCE (phenotypic.schema.NEIGHBOR_DIST attribute) RIGHT_NEIGHBOR_OBJ_LABEL (phenotypic.schema.NEIGHBOR_DIST attribute) rindex() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) rjust() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) rms_contrast (phenotypic.util.ContrastMetrics attribute) RMSE (phenotypic.schema.MODEL_METRICS attribute) rng_seed (phenotypic.detect.FilFinderDetector attribute) robust_color_center() (in module phenotypic.util) robust_headers() (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) ROBUST_MEAN_RADIUS (phenotypic.schema.RADIAL_EXPANSION attribute) rois (phenotypic.correction.ColorCheckerProfile attribute) root (phenotypic.gui.builder._state._DagBuilderState attribute), [1] root_posix (phenotypic.sdk_.HDF attribute), [1] rotate() (phenotypic.Image method) RoundPeaksDetector (class in phenotypic.detect) RoundPeaksPipeline (class in phenotypic.prefab) row_edges (phenotypic.grid.ManualGridFinder attribute), [1] ROW_INTERVAL_END (phenotypic.schema.GRID attribute) ROW_INTERVAL_START (phenotypic.schema.GRID attribute) ROW_LINREG_B (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) ROW_LINREG_M (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.sdk_.constants_.GRID_LINREG_STATS_EXTRACTOR attribute) ROW_MAJOR_IDX (phenotypic.schema.GRID attribute) ROW_NUM (phenotypic.schema.GRID attribute) ROWS (phenotypic.sdk_.ChunkManifestKey attribute) rpartition() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) rsplit() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) rst_table() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) rstrip() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) run() (phenotypic.sdk_.napari_.LabelEditorWidget method) (phenotypic.sdk_.napari_.PointPickerWidget method) (phenotypic.tune.ScreeningController method) run_auto_space() (in module phenotypic.tune) run_completion_marker_path() (in module phenotypic.sdk_) run_held_out() (in module phenotypic.tune) run_tuning() (in module phenotypic.tune) rung_factor (phenotypic.tune.Evaluator attribute) rung_floor (phenotypic.tune.Evaluator attribute) RUNNER_DETECTED (phenotypic.schema.RADIAL_EXPANSION attribute) RUNNER_LENGTH (phenotypic.schema.RADIAL_EXPANSION attribute) S s0 (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) s0_prior (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) s0_prior_cv (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) s0_prior_groupby (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) s0_prior_sigma (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) safe_writer() (phenotypic.sdk_.HDF method) SAMPLE_ID (phenotypic.schema.SAMPLE_METADATA attribute) SAMPLE_METADATA (class in phenotypic.schema) sampler (phenotypic.tune.strategy.OptunaConfig attribute) SATURATION_ROBUST_MEAN (phenotypic.schema.ColorHSV attribute) save2hdf5() (phenotypic.Image method) save2pickle() (phenotypic.Image method) save_array2hdf5() (phenotypic.sdk_.HDF static method) save_frame_append() (phenotypic.sdk_.HDF static method) save_frame_new() (phenotypic.sdk_.HDF static method) save_frame_update() (phenotypic.sdk_.HDF static method) save_overlay() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) save_series_append() (phenotypic.sdk_.HDF static method) save_series_new() (phenotypic.sdk_.HDF static method) save_series_update() (phenotypic.sdk_.HDF static method) sbatch_submission_environment() (in module phenotypic.sdk_.slurm) scale (phenotypic.measure.MeasureTexture attribute) scale_factor (phenotypic.correction.DenoiseBlockMatch attribute) scales (phenotypic.util.StructureMetrics attribute) schema() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) schema_json() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) scope_path (phenotypic.gui.builder._validation.Issue attribute), [1] score (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) score_image() (phenotypic.tune.score.CompositeScorer method) (phenotypic.tune.score.QCScorer method) (phenotypic.tune.score.ReferenceFreeScorer method) (phenotypic.tune.score.Scorer method) (phenotypic.tune.score.SupervisedScorer method) Scorer (class in phenotypic.tune.score) scorer (phenotypic.tune.TuningSpec attribute) scorers (phenotypic.tune.score.CompositeScorer attribute) SCRATCH (phenotypic.sdk_.EnvVar attribute) screened (phenotypic.tune.ScreeningResult attribute) screening_warmup_floor() (in module phenotypic.tune) ScreeningConfig (class in phenotypic.tune) ScreeningController (class in phenotypic.tune) ScreeningResult (class in phenotypic.tune) search_dist (phenotypic.enhance.NonLocalMeansDenoiser attribute) search_space (phenotypic.tune.TuningSpec attribute) SearchSpace (class in phenotypic.tune) SearchStrategy (class in phenotypic.tune.strategy) SecondaryOtsuDetector (class in phenotypic.detect) section (phenotypic.abc_.plotting.FigureSpec attribute), [1] section_num (phenotypic.measure.MeasureGridLinRegStats attribute) seed (phenotypic.tune.strategy.GridConfig attribute) (phenotypic.tune.strategy.OptunaConfig attribute) (phenotypic.tune.strategy.RandomConfig attribute) (phenotypic.tune.strategy.StrategyConfig attribute) seed_thresh (phenotypic.detect.TwoKFilamentousDetector attribute) (phenotypic.enhance.FocusEdgeTwoKPhase attribute) select_params_to_freeze() (in module phenotypic.tune) selected_block_id (phenotypic.gui.builder._state._DagBuilderState attribute), [1] selected_edge_id (phenotypic.gui.builder._state._DagBuilderState attribute), [1] selected_targets_by_scope (phenotypic.gui.builder._state._DagBuilderState attribute) SELECTION_MARKER (phenotypic.schema.GENETIC_METADATA attribute) selection_mode (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) sentinel_resubmitted_path() (in module phenotypic.sdk_) SeparateObjects (class in phenotypic.refine) separation_threshold (phenotypic.refine.ExtractColonyCore attribute) set_active_set() (phenotypic.tune.score.CompositeScorer method) set_data_posix (phenotypic.sdk_.HDF attribute), [1] set_filters() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_meas() (phenotypic.abc_.PrefabPipeline method) (phenotypic.ImagePipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_model() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_ops() (phenotypic.abc_.PrefabPipeline method) (phenotypic.ImagePipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_plots() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_post() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) set_qc() (phenotypic.abc_.PrefabPipeline method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) setdefault() (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) SetDetectMode (class in phenotypic.enhance) severity (phenotypic.gui.builder._validation.Issue attribute), [1] SHAPE (class in phenotypic.schema) shape (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor property) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale property) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap property) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask property) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB property) (phenotypic.detect.ManualGridPointDetector attribute) (phenotypic.detect.ManualPointDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.RankMedianEnhancer attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.enhance.SubtractWhiteTophat attribute) (phenotypic.enhance.WhiteTophatEnhance attribute) (phenotypic.refine.ManualRefine attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskGradient attribute) (phenotypic.refine.MaskOpening attribute) (phenotypic.refine.MaskWhiteTophat attribute) shard_parquet_filename() (in module phenotypic.sdk_) SharpenEdgeGauss (class in phenotypic.enhance) Sharpness (phenotypic.util.QualityScores attribute) shift_x (phenotypic.enhance.RankMedianEnhancer attribute) shift_y (phenotypic.enhance.RankMedianEnhancer attribute) should_prune() (phenotypic.tune.strategy.NoOpChannel method) (phenotypic.tune.strategy.PruningChannel method) shoulder_slope_ratio (phenotypic.analysis.LinearCapAndLagModel attribute) show() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) (phenotypic.analysis.EdgeCorrector method) (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.LinearCapAndLagModel method) (phenotypic.analysis.LinearLagModel method) (phenotypic.analysis.LogGrowthModel method) (phenotypic.analysis.MADOutlierRemover method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) (phenotypic.analysis.TukeyOutlierRemover method) (phenotypic.Image method) sigma (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.detect.CannyDetector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.FlattenIllumination attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.StructureSmoothing attribute) (phenotypic.enhance.SubtractGaussian attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) sigma_color (phenotypic.enhance.LocalEdgeDenoise attribute) sigma_d (phenotypic.measure.MeasureOrientationZones attribute) sigma_i (phenotypic.measure.MeasureOrientationZones attribute) sigma_mad (phenotypic.util.NoiseMetrics attribute) sigma_onf (phenotypic.enhance.FocusEdgeColorPhase attribute) (phenotypic.enhance.FocusEdgeMonogenicPhase attribute) (phenotypic.enhance.FocusEdgePhase attribute) sigma_psd (phenotypic.correction.ColorDenoise attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) sigma_spatial (phenotypic.enhance.LocalEdgeDenoise attribute) sigmas (phenotypic.enhance.FocusEdgeFrangi attribute) (phenotypic.enhance.FocusEdgeHessian attribute) (phenotypic.enhance.FocusEdgeMeijering attribute) (phenotypic.enhance.FocusEdgeSato attribute) signal_grace (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) SIGNED_LONG_RANGE_ROTATION_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) SIGNED_LONG_RANGE_ROTATION_MASK_DENSE_TO_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) SIGNED_LONG_RANGE_ROTATION_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) SIGNED_LONG_RANGE_ROTATION_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) SinePeakDetector (class in phenotypic.detect) SINGLE_IMAGE_HDF5_PARENT_GROUP (phenotypic.sdk_.constants_.IO attribute) SINGLE_IMAGE_ROOT_POSIX (phenotypic.sdk_.HDF attribute), [1] SIZE (class in phenotypic.schema) size (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor property) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale property) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap property) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask property) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB property) size_threshold (phenotypic.refine.SmallToLargeMerger attribute) Skeletonize (class in phenotypic.refine) slices (phenotypic._core._image_parts.accessors._objects_accessor.ObjectsAccessor property) slurm_args (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) SLURM_ARRAY_JOB_ID (phenotypic.sdk_.EnvVar attribute) SLURM_ARRAY_TASK_COUNT (phenotypic.sdk_.EnvVar attribute) SLURM_ARRAY_TASK_ID (phenotypic.sdk_.EnvVar attribute) SLURM_CPUS_PER_TASK (phenotypic.sdk_.EnvVar attribute) SLURM_INFO (phenotypic.sdk_.DashboardManifestKey attribute) SLURM_JOB_ID (phenotypic.sdk_.EnvVar attribute) SLURM_JOB_IDS (phenotypic.sdk_.JobMetadataKey attribute) SLURM_MEM_PER_NODE (phenotypic.sdk_.EnvVar attribute) slurm_scripts_dir() (in module phenotypic.sdk_) SlurmArrayScriptSpec (class in phenotypic.sdk_.slurm) small_object_min_size (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) SmallObjectRemover (class in phenotypic.refine) SmallToLargeMerger (class in phenotypic.refine) smax (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) Smoothing (class in phenotypic.abc_) smoothing_sigma (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) smoothing_window (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.TrimAsymmetry attribute) snr (phenotypic.util.NoiseMetrics attribute) SNR (phenotypic.util.QualityScores attribute) snr_margin (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) SOLIDITY (phenotypic.schema.SHAPE attribute) source (phenotypic.tune.Knob attribute) source_block_id (phenotypic.gui.builder._state.Edge attribute), [1] source_cache_key() (in module phenotypic.sdk_) SOURCE_PLATE (phenotypic.schema.SAMPLE_METADATA attribute) source_port (phenotypic.gui.builder._state.Edge attribute), [1] SOURCE_WELL (phenotypic.schema.SAMPLE_METADATA attribute) SPAN_PCT_HIGH (phenotypic.grid.CenteredAutoGridFinder attribute) SPAN_PCT_LOW (phenotypic.grid.CenteredAutoGridFinder attribute) SPARSE_AREA (phenotypic.schema.SYMMETRIC_ZONES attribute) SPARSE_END_RADIUS (phenotypic.schema.SYMMETRIC_ZONES attribute) SPECIMEN_PREP (phenotypic.schema.REMBI_MODULE attribute) specs() (phenotypic.abc_.plotting.BoundFigures method) SpImagerPipeline (class in phenotypic.prefab) split() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) split_disconnected_labels (phenotypic.abc_.GpuDetector attribute) split_measurements() (in module phenotypic.util) split_merged (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) (phenotypic.refine.GridAlignmentRefiner attribute) (phenotypic.refine.RefineBySineFit attribute) splitlines() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) SRGB (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) stability_weight (phenotypic.tune.Evaluator attribute) stage_arg (phenotypic.correction.DenoiseBlockMatch attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) STANDARD_DEVIATION_INTENSITY (phenotypic.schema.INTENSITY attribute) START_TIME (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.JobMetadataKey attribute) STARTED (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) startswith() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) STATUS (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.QUALITY_CHECK attribute) status_col() (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) stddev_mag_threshold (phenotypic.correction.ColorCheckerProfile attribute) stderr_label (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) step (phenotypic.abc_.plotting.Control attribute) (phenotypic.tune.FloatRange attribute) (phenotypic.tune.IntRange attribute) (phenotypic.tune.TuneSpec attribute) storage_url (phenotypic.tune.strategy.OptunaConfig attribute) store (phenotypic.tune.TuningEngine property) STRAIN (phenotypic.schema.GENETIC_METADATA attribute) strain_label (phenotypic.plotting.PlotColonyMetricOverTime attribute) strategy (phenotypic.tune.TuningSpec attribute) StrategyConfig (class in phenotypic.tune.strategy) STRESS (phenotypic.schema.CONDITION_METADATA attribute) strict_writer() (phenotypic.sdk_.HDF method) strip() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) structure (phenotypic.refine.MaskFill attribute) StructureMetrics (class in phenotypic.util) StructureSmoothing (class in phenotypic.enhance) STUDY (phenotypic.schema.REMBI_MODULE attribute) STUDY_METADATA (class in phenotypic.schema) StudyStore (in module phenotypic.tune) subject (phenotypic.abc_.plotting.BoundFigures property) subject_label (phenotypic.analysis.ICC attribute) subject_param (phenotypic.abc_.plotting.FigureSpec attribute), [1] submit_drip_feed_start() (in module phenotypic.sdk_.slurm) submit_script() (in module phenotypic.sdk_.slurm) subtract_background (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) SubtractGaussian (class in phenotypic.enhance) SubtractOpening (class in phenotypic.enhance) SubtractRollingBall (class in phenotypic.enhance) SubtractWhiteTophat (class in phenotypic.enhance) SUCCESS_RATE (phenotypic.sdk_.DashboardManifestKey attribute) SUFFIX (phenotypic.schema.METADATA attribute) suggest() (phenotypic.tune.strategy.GridStrategy method) (phenotypic.tune.strategy.RandomStrategy method) (phenotypic.tune.strategy.SearchStrategy method) SUM_AVERAGE (phenotypic.schema.TEXTURE attribute) SUM_ENTROPY (phenotypic.schema.TEXTURE attribute) SUM_VARIANCE (phenotypic.schema.TEXTURE attribute) summary() (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) SupervisedScorer (class in phenotypic.tune.score) SUPPLEMENT (phenotypic.schema.CONDITION_METADATA attribute) SUPPORTED_FORMATS (phenotypic.sdk_.constants_.IMAGE_MODE attribute) supports_batching (phenotypic.abc_.GpuDetector attribute) supports_object_curation (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) suspicious (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) suspicious_count_floor (phenotypic.tune.Evaluator attribute) suspicious_score_floor (phenotypic.tune.Evaluator attribute) swapcase() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) swmr_reader() (phenotypic.sdk_.HDF method) swmr_writer() (phenotypic.sdk_.HDF method) SYMMETRIC_RADIUS (phenotypic.schema.SYMMETRIC_ZONES attribute) SYMMETRIC_ZONES (class in phenotypic.schema) symmetry_threshold (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) (phenotypic.refine.TrimAsymmetry attribute) T table() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) table_spec() (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) target (phenotypic.tune.Knob attribute) target_block_id (phenotypic.gui.builder._state.Edge attribute), [1] target_illuminant (phenotypic.correction.ColorCheckerProfile attribute) target_port (phenotypic.gui.builder._state.Edge attribute), [1] target_slot (phenotypic.gui.builder._state.Edge attribute), [1] targets() (phenotypic.tune.SearchSpace method) task_indices (phenotypic.sdk_.slurm.SlurmArrayScriptSpec attribute) task_status_filename() (in module phenotypic.sdk_) task_status_path() (in module phenotypic.sdk_) tau_core (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) tau_dense (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) tau_sparse (phenotypic.measure.MeasureOrientationZones attribute) (phenotypic.measure.MeasureSymmetricZones attribute) TECHNICAL_REPLICATE (phenotypic.schema.SAMPLE_METADATA attribute) TEMPERATURE (phenotypic.schema.CULTURE_METADATA attribute) term_name (phenotypic.tune.score.QCScorer attribute) terms (phenotypic.tune.EvaluationResult attribute) (phenotypic.tune.Trial attribute) TEXTURE (class in phenotypic.schema) texture_enhance (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) texture_quant_lvl (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) texture_scale (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) texture_warn (phenotypic.prefab.HeavyRoundPeaksPipeline attribute) Thinning (class in phenotypic.refine) thresh_method (phenotypic.detect.InoculumDetector attribute) (phenotypic.detect.RoundPeaksDetector attribute) (phenotypic.detect.SinePeakDetector attribute) threshold (phenotypic.analysis.MADOutlierRemover attribute), [1] (phenotypic.detect.FilFinderDetector attribute) (phenotypic.detect.UserThreshold attribute) ThresholdDetector (class in phenotypic.abc_) tier (phenotypic.schema.Entry attribute) tier() (phenotypic.abc_.MeasurementInfo class method) (phenotypic.schema.ACQUISITION_METADATA class method) (phenotypic.schema.BBOX class method) (phenotypic.schema.ColorComposition class method) (phenotypic.schema.ColorHSV class method) (phenotypic.schema.ColorLab class method) (phenotypic.schema.Colorxy class method) (phenotypic.schema.ColorXYZ class method) (phenotypic.schema.CONDITION_METADATA class method) (phenotypic.schema.CULTURE_METADATA class method) (phenotypic.schema.CURATION class method) (phenotypic.schema.EDGE_CORRECTION class method) (phenotypic.schema.ErrorCategory class method) (phenotypic.schema.EXPERIMENT_METADATA class method) (phenotypic.schema.GENETIC_METADATA class method) (phenotypic.schema.GRID class method) (phenotypic.schema.GRID_LINREG_STATS class method) (phenotypic.schema.GRID_SPREAD class method) (phenotypic.schema.INTENSITY class method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL class method) (phenotypic.schema.LINEAR_LAG_MODEL class method) (phenotypic.schema.LOG_GROWTH_MODEL class method) (phenotypic.schema.MeasurementInfo class method) (phenotypic.schema.METADATA class method) (phenotypic.schema.METADATA_MATCH class method) (phenotypic.schema.MODEL_METRICS class method) (phenotypic.schema.NEIGHBOR_DIST class method) (phenotypic.schema.OBJECT class method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC class method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY class method) (phenotypic.schema.PLATE_METADATA class method) (phenotypic.schema.QUALITY_CHECK class method) (phenotypic.schema.QUALITY_COUNT class method) (phenotypic.schema.QUALITY_ICC class method) (phenotypic.schema.QUALITY_MAD class method) (phenotypic.schema.QUALITY_OCCUPANCY class method) (phenotypic.schema.QUALITY_SE class method) (phenotypic.schema.QUALITY_TUKEY class method) (phenotypic.schema.QUALITY_ZMAX class method) (phenotypic.schema.RADIAL_EXPANSION class method) (phenotypic.schema.SAMPLE_METADATA class method) (phenotypic.schema.SHAPE class method) (phenotypic.schema.SIZE class method) (phenotypic.schema.STUDY_METADATA class method) (phenotypic.schema.SYMMETRIC_ZONES class method) (phenotypic.schema.TEXTURE class method) (phenotypic.sdk_.constants_.ConstantLabels class method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS class method) (phenotypic.sdk_.constants_.PIPE_STATUS class method) tier_override (phenotypic.abc_.MeasurementInfo attribute) (phenotypic.schema.ACQUISITION_METADATA attribute) (phenotypic.schema.BBOX attribute) (phenotypic.schema.ColorComposition attribute) (phenotypic.schema.ColorHSV attribute) (phenotypic.schema.ColorLab attribute) (phenotypic.schema.Colorxy attribute) (phenotypic.schema.ColorXYZ attribute) (phenotypic.schema.CONDITION_METADATA attribute) (phenotypic.schema.CULTURE_METADATA attribute) (phenotypic.schema.CURATION attribute) (phenotypic.schema.EDGE_CORRECTION attribute) (phenotypic.schema.ErrorCategory attribute) (phenotypic.schema.EXPERIMENT_METADATA attribute) (phenotypic.schema.GENETIC_METADATA attribute) (phenotypic.schema.GRID attribute) (phenotypic.schema.GRID_LINREG_STATS attribute) (phenotypic.schema.GRID_SPREAD attribute) (phenotypic.schema.INTENSITY attribute) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) (phenotypic.schema.LOG_GROWTH_MODEL attribute) (phenotypic.schema.MeasurementInfo attribute) (phenotypic.schema.METADATA attribute) (phenotypic.schema.METADATA_MATCH attribute) (phenotypic.schema.MODEL_METRICS attribute) (phenotypic.schema.NEIGHBOR_DIST attribute) (phenotypic.schema.OBJECT attribute) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY attribute) (phenotypic.schema.PLATE_METADATA attribute) (phenotypic.schema.QUALITY_CHECK attribute) (phenotypic.schema.QUALITY_COUNT attribute) (phenotypic.schema.QUALITY_ICC attribute) (phenotypic.schema.QUALITY_MAD attribute) (phenotypic.schema.QUALITY_OCCUPANCY attribute) (phenotypic.schema.QUALITY_SE attribute) (phenotypic.schema.QUALITY_TUKEY attribute) (phenotypic.schema.QUALITY_ZMAX attribute) (phenotypic.schema.RADIAL_EXPANSION attribute) (phenotypic.schema.SAMPLE_METADATA attribute) (phenotypic.schema.SHAPE attribute) (phenotypic.schema.SIZE attribute) (phenotypic.schema.STUDY_METADATA attribute) (phenotypic.schema.SYMMETRIC_ZONES attribute) (phenotypic.schema.TEXTURE attribute) (phenotypic.sdk_.constants_.ConstantLabels attribute) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS attribute) (phenotypic.sdk_.constants_.PIPE_STATUS attribute) TIFF_EXTENSIONS (phenotypic.sdk_.constants_.IO attribute) tile_overlap (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) tile_size (phenotypic.detect.FilamentousFungiDetector attribute) (phenotypic.detect.TwoKFilamentousDetector attribute) time (phenotypic.plotting.PlotColonyMetricOverTime attribute) (phenotypic.plotting.PlotMeasTimeSeries attribute) TIME (phenotypic.schema.CULTURE_METADATA attribute) time_label (phenotypic.analysis.EdgeCorrector attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) TIME_UNIT (phenotypic.schema.CULTURE_METADATA attribute) timed_execution() (in module phenotypic.sdk_) TIMEPOINT (phenotypic.schema.CULTURE_METADATA attribute) TIMESTAMP (phenotypic.sdk_.ProcessingStateKey attribute) title (phenotypic.abc_.plotting.FigureSpec attribute), [1] TITLE (phenotypic.schema.STUDY_METADATA attribute) title() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) to_dataframe() (phenotypic.tune.JournalStudyStore method) to_dict() (phenotypic.tune.GeneralizationReport method) to_json() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.BaseOperation method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridFinder method) (phenotypic.abc_.GridMeasureFeatures method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MeasureFeatures method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PostMeasurement method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.ColorCheckerProfile method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.AutoGridFinder method) (phenotypic.grid.CenteredAutoGridFinder method) (phenotypic.grid.GridApply method) (phenotypic.grid.ManualGridFinder method) (phenotypic.ImagePipeline method) (phenotypic.measure.MeasureBounds method) (phenotypic.measure.MeasureColor method) (phenotypic.measure.MeasureGridLinRegStats method) (phenotypic.measure.MeasureGridSpread method) (phenotypic.measure.MeasureIntensity method) (phenotypic.measure.MeasureNeighborDist method) (phenotypic.measure.MeasureOrientationZones method) (phenotypic.measure.MeasureShape method) (phenotypic.measure.MeasureSize method) (phenotypic.measure.MeasureSymmetricZones method) (phenotypic.measure.MeasureTexture method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.tune.TuningSpec method) to_parquet() (phenotypic.tune.JournalStudyStore method) to_pipeline_dag() (in module phenotypic.gui.builder._conversion_dag) to_search_space() (phenotypic.tune.InferredSearchSpace method) to_table() (phenotypic.analysis.ExpectedVsDetectedCount method) (phenotypic.analysis.GridOccupancy method) (phenotypic.analysis.ICC method) (phenotypic.analysis.MaxModifiedZScore method) (phenotypic.analysis.RelativeMAD method) (phenotypic.analysis.ReplicateAgreement method) (phenotypic.analysis.TukeyOutlierFraction method) toast_queue (phenotypic.gui.builder._state._DagBuilderState attribute), [1] tol (phenotypic.detect.ChanVeseDetector attribute) (phenotypic.grid.AutoGridFinder attribute) top (phenotypic.correction.CropImage attribute) (phenotypic.correction.PadImage attribute) top_k (phenotypic.tune.ScreeningConfig attribute) top_n (phenotypic.analysis.EdgeCorrector attribute) TOTAL_CHUNKS (phenotypic.sdk_.DashboardManifestSlurmInfoKey attribute) TOTAL_IMAGES (phenotypic.sdk_.DashboardManifestKey attribute) TOTAL_ROWS (phenotypic.sdk_.ChunkManifestKey attribute) translate() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) TREATMENT (phenotypic.schema.CONDITION_METADATA attribute) Trial (class in phenotypic.tune) trials (phenotypic.tune.JournalStudyStore property) trials_parquet_path() (in module phenotypic.sdk_) TriangleDetector (class in phenotypic.detect) TrimAsymmetry (class in phenotypic.refine) truncate (phenotypic.enhance.BlurGauss attribute) (phenotypic.enhance.SubtractGaussian attribute) TukeyOutlierFraction (class in phenotypic.analysis) TukeyOutlierRemover (class in phenotypic.analysis) tunable (phenotypic.tune.TuneSpec attribute) tune_cache_dir() (in module phenotypic.sdk_) tune_cache_run_marker_path() (in module phenotypic.sdk_) tune_cache_split_assignment_path() (in module phenotypic.sdk_) tune_cache_splits_dir() (in module phenotypic.sdk_) tune_cache_study_db_path() (in module phenotypic.sdk_) TuneSpec (class in phenotypic.tune) tuning_spec_path() (in module phenotypic.sdk_) TuningEngine (class in phenotypic.tune) TuningSpec (class in phenotypic.tune) TURNING_MASK_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TURNING_MASK_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TURNING_MASK_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TURNING_RADIAL_DENSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TURNING_RADIAL_OVERALL (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TURNING_RADIAL_SPARSE (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC attribute) TwoKFilamentousDetector (class in phenotypic.detect) U UNCATEGORIZED (phenotypic.schema.REMBI_MODULE attribute) UNDER_DISTANCE (phenotypic.schema.NEIGHBOR_DIST attribute) UNDER_NEIGHBOR_OBJ_LABEL (phenotypic.schema.NEIGHBOR_DIST attribute) UNDERSEGMENTED (phenotypic.schema.ErrorCategory attribute) Uniformity (phenotypic.util.QualityScores attribute) UnknownError unmatched_groups (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) UnsupportedFileTypeError UnsupportedImageFormat update() (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) update_forward_refs() (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) upper() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method) UPPER_FENCE (phenotypic.schema.QUALITY_TUKEY attribute) upper_percentile (phenotypic.enhance.ContrastStretching attribute) use_badge (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) use_gat (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.ColorDenoise attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.EnhanceBlockMatch attribute) (phenotypic.enhance.LocalEdgeDenoise attribute) (phenotypic.enhance.NonLocalMeansDenoiser attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) use_label (phenotypic.abc_.MeasurementInfo property) (phenotypic.schema.ACQUISITION_METADATA property) (phenotypic.schema.BBOX property) (phenotypic.schema.ColorComposition property) (phenotypic.schema.ColorHSV property) (phenotypic.schema.ColorLab property) (phenotypic.schema.Colorxy property) (phenotypic.schema.ColorXYZ property) (phenotypic.schema.CONDITION_METADATA property) (phenotypic.schema.CULTURE_METADATA property) (phenotypic.schema.CURATION property) (phenotypic.schema.EDGE_CORRECTION property) (phenotypic.schema.ErrorCategory property) (phenotypic.schema.EXPERIMENT_METADATA property) (phenotypic.schema.GENETIC_METADATA property) (phenotypic.schema.GRID property) (phenotypic.schema.GRID_LINREG_STATS property) (phenotypic.schema.GRID_SPREAD property) (phenotypic.schema.INTENSITY property) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL property) (phenotypic.schema.LINEAR_LAG_MODEL property) (phenotypic.schema.LOG_GROWTH_MODEL property) (phenotypic.schema.MeasurementInfo property) (phenotypic.schema.METADATA property) (phenotypic.schema.METADATA_MATCH property) (phenotypic.schema.MODEL_METRICS property) (phenotypic.schema.NEIGHBOR_DIST property) (phenotypic.schema.OBJECT property) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC property) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY property) (phenotypic.schema.PLATE_METADATA property) (phenotypic.schema.QUALITY_CHECK property) (phenotypic.schema.QUALITY_COUNT property) (phenotypic.schema.QUALITY_ICC property) (phenotypic.schema.QUALITY_MAD property) (phenotypic.schema.QUALITY_OCCUPANCY property) (phenotypic.schema.QUALITY_SE property) (phenotypic.schema.QUALITY_TUKEY property) (phenotypic.schema.QUALITY_ZMAX property) (phenotypic.schema.RADIAL_EXPANSION property) (phenotypic.schema.SAMPLE_METADATA property) (phenotypic.schema.SHAPE property) (phenotypic.schema.SIZE property) (phenotypic.schema.STUDY_METADATA property) (phenotypic.schema.SYMMETRIC_ZONES property) (phenotypic.schema.TEXTURE property) (phenotypic.sdk_.constants_.ConstantLabels property) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS property) (phenotypic.sdk_.constants_.PIPE_STATUS property) use_quantiles (phenotypic.detect.CannyDetector attribute) UserThreshold (class in phenotypic.detect) UUID (phenotypic.schema.METADATA attribute) UuidAssignmentError UUIDReassignmentError V v (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL attribute) (phenotypic.schema.LINEAR_LAG_MODEL attribute) VACANT (phenotypic.schema.QUALITY_OCCUPANCY attribute) val_range() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) validate() (in module phenotypic.gui.builder._validation) (phenotypic.abc_.BackgroundSubtraction class method) (phenotypic.abc_.BaseOperation class method) (phenotypic.abc_.ContrastAdjustment class method) (phenotypic.abc_.FocusBlob class method) (phenotypic.abc_.FocusEdge class method) (phenotypic.abc_.GpuDetector class method) (phenotypic.abc_.GridCorrector class method) (phenotypic.abc_.GridFinder class method) (phenotypic.abc_.GridMeasureFeatures class method) (phenotypic.abc_.GridObjectDetector class method) (phenotypic.abc_.GridObjectRefiner class method) (phenotypic.abc_.GridOperation class method) (phenotypic.abc_.ImageCorrector class method) (phenotypic.abc_.ImageDenoiser class method) (phenotypic.abc_.ImageEnhancer class method) (phenotypic.abc_.ImageOperation class method) (phenotypic.abc_.MeasureFeatures class method) (phenotypic.abc_.MorphologicalFiltering class method) (phenotypic.abc_.ObjectDetector class method) (phenotypic.abc_.ObjectRefiner class method) (phenotypic.abc_.PostMeasurement class method) (phenotypic.abc_.PrefabPipeline class method) (phenotypic.abc_.Smoothing class method) (phenotypic.abc_.ThresholdDetector class method) (phenotypic.analysis.EdgeCorrector class method) (phenotypic.analysis.ErrorCutoffFinder class method) (phenotypic.analysis.ExpectedVsDetectedCount class method) (phenotypic.analysis.GridOccupancy class method) (phenotypic.analysis.ICC class method) (phenotypic.analysis.LinearCapAndLagModel class method) (phenotypic.analysis.LinearLagModel class method) (phenotypic.analysis.LogGrowthModel class method) (phenotypic.analysis.MADOutlierRemover class method) (phenotypic.analysis.MaxModifiedZScore class method) (phenotypic.analysis.RelativeMAD class method) (phenotypic.analysis.ReplicateAgreement class method) (phenotypic.analysis.TukeyOutlierFraction class method) (phenotypic.analysis.TukeyOutlierRemover class method) (phenotypic.correction.BayesShrinkCorrector class method) (phenotypic.correction.CaptureMetadata class method) (phenotypic.correction.ColorCheckerProfile class method) (phenotypic.correction.ColorCorrector class method) (phenotypic.correction.ColorDenoise class method) (phenotypic.correction.CropImage class method) (phenotypic.correction.DenoiseBlockMatch class method) (phenotypic.correction.GridAligner class method) (phenotypic.correction.PadImage class method) (phenotypic.correction.VisuShrinkCorrector class method) (phenotypic.detect.CannyDetector class method) (phenotypic.detect.ChanVeseDetector class method) (phenotypic.detect.CompositeDetector class method) (phenotypic.detect.FilamentousFungiDetector class method) (phenotypic.detect.FilFinderDetector class method) (phenotypic.detect.HysteresisDetector class method) (phenotypic.detect.InoculumDetector class method) (phenotypic.detect.IsodataDetector class method) (phenotypic.detect.LiDetector class method) (phenotypic.detect.MadHysteresisDetector class method) (phenotypic.detect.ManualGridPointDetector class method) (phenotypic.detect.ManualPointDetector class method) (phenotypic.detect.MeanDetector class method) (phenotypic.detect.MinimumDetector class method) (phenotypic.detect.OtsuDetector class method) (phenotypic.detect.RankOtsuDetector class method) (phenotypic.detect.RoundPeaksDetector class method) (phenotypic.detect.SecondaryOtsuDetector class method) (phenotypic.detect.SinePeakDetector class method) (phenotypic.detect.TriangleDetector class method) (phenotypic.detect.TwoKFilamentousDetector class method) (phenotypic.detect.UserThreshold class method) (phenotypic.detect.WatershedDetector class method) (phenotypic.detect.YenDetector class method) (phenotypic.enhance.BayesShrinkEnhancer class method) (phenotypic.enhance.BlurGauss class method) (phenotypic.enhance.CompositeEnhance class method) (phenotypic.enhance.ContrastGamma class method) (phenotypic.enhance.ContrastLog class method) (phenotypic.enhance.ContrastSigmoid class method) (phenotypic.enhance.ContrastStretching class method) (phenotypic.enhance.EnhanceBlockMatch class method) (phenotypic.enhance.EnhanceLocalContrast class method) (phenotypic.enhance.FlattenIllumination class method) (phenotypic.enhance.FocusBlobLoG class method) (phenotypic.enhance.FocusEdgeColorPhase class method) (phenotypic.enhance.FocusEdgeFrangi class method) (phenotypic.enhance.FocusEdgeHessian class method) (phenotypic.enhance.FocusEdgeLaplace class method) (phenotypic.enhance.FocusEdgeMeijering class method) (phenotypic.enhance.FocusEdgeMonogenicPhase class method) (phenotypic.enhance.FocusEdgePhase class method) (phenotypic.enhance.FocusEdgeSato class method) (phenotypic.enhance.FocusEdgeSobel class method) (phenotypic.enhance.FocusEdgeTwoKPhase class method) (phenotypic.enhance.GrayOpening class method) (phenotypic.enhance.ImageInverter class method) (phenotypic.enhance.LocalEdgeDenoise class method) (phenotypic.enhance.MedianFilter class method) (phenotypic.enhance.NonLocalMeansDenoiser class method) (phenotypic.enhance.RankMedianEnhancer class method) (phenotypic.enhance.SetDetectMode class method) (phenotypic.enhance.SharpenEdgeGauss class method) (phenotypic.enhance.StructureSmoothing class method) (phenotypic.enhance.SubtractGaussian class method) (phenotypic.enhance.SubtractOpening class method) (phenotypic.enhance.SubtractRollingBall class method) (phenotypic.enhance.SubtractWhiteTophat class method) (phenotypic.enhance.VisuShrinkEnhancer class method) (phenotypic.enhance.WhiteTophatEnhance class method) (phenotypic.grid.AutoGridFinder class method) (phenotypic.grid.CenteredAutoGridFinder class method) (phenotypic.grid.GridApply class method) (phenotypic.grid.ManualGridFinder class method) (phenotypic.measure.MeasureBounds class method) (phenotypic.measure.MeasureColor class method) (phenotypic.measure.MeasureGridLinRegStats class method) (phenotypic.measure.MeasureGridSpread class method) (phenotypic.measure.MeasureIntensity class method) (phenotypic.measure.MeasureNeighborDist class method) (phenotypic.measure.MeasureOrientationZones class method) (phenotypic.measure.MeasureShape class method) (phenotypic.measure.MeasureSize class method) (phenotypic.measure.MeasureSymmetricZones class method) (phenotypic.measure.MeasureTexture class method) (phenotypic.plotting.PlotColonyMetricOverTime class method) (phenotypic.plotting.PlotDetectModes class method) (phenotypic.plotting.PlotDiagnostics class method) (phenotypic.plotting.PlotMeasTimeSeries class method) (phenotypic.prefab.FilamentousFungiPipeline class method) (phenotypic.prefab.GridSectionPipeline class method) (phenotypic.prefab.HeavyOtsuPipeline class method) (phenotypic.prefab.HeavyRoundPeaksPipeline class method) (phenotypic.prefab.HeavyWatershedPipeline class method) (phenotypic.prefab.RoundPeaksPipeline class method) (phenotypic.prefab.SpImagerPipeline class method) (phenotypic.refine.ExtractColonyCore class method) (phenotypic.refine.GridAlignmentRefiner class method) (phenotypic.refine.GridOversizedObjectRemover class method) (phenotypic.refine.KeepNearestCenter class method) (phenotypic.refine.KeepSectionLargest class method) (phenotypic.refine.ManualRefine class method) (phenotypic.refine.MaskClosing class method) (phenotypic.refine.MaskDilation class method) (phenotypic.refine.MaskErosion class method) (phenotypic.refine.MaskFill class method) (phenotypic.refine.MaskGradient class method) (phenotypic.refine.MaskOpening class method) (phenotypic.refine.MaskWhiteTophat class method) (phenotypic.refine.MergeFragmentChains class method) (phenotypic.refine.NearestNeighborMerger class method) (phenotypic.refine.ReduceSectionsByLine class method) (phenotypic.refine.RefineBySineFit class method) (phenotypic.refine.RemoveBorderObjects class method) (phenotypic.refine.RemoveByFeature class method) (phenotypic.refine.RemoveGridOutliers class method) (phenotypic.refine.RemoveLowCircularity class method) (phenotypic.refine.SeparateObjects class method) (phenotypic.refine.Skeletonize class method) (phenotypic.refine.SmallObjectRemover class method) (phenotypic.refine.SmallToLargeMerger class method) (phenotypic.refine.Thinning class method) (phenotypic.refine.TrimAsymmetry class method) (phenotypic.sdk_.InputLayerMixin class method) (phenotypic.sdk_.NormalizedOutputMixin class method) (phenotypic.tune.Budget class method) (phenotypic.tune.Categorical class method) (phenotypic.tune.EvaluationResult class method) (phenotypic.tune.Evaluator class method) (phenotypic.tune.Excluded class method) (phenotypic.tune.Fixed class method) (phenotypic.tune.FloatRange class method) (phenotypic.tune.HeldOutConfig class method) (phenotypic.tune.ImportanceReport class method) (phenotypic.tune.InferredSearchSpace class method) (phenotypic.tune.IntRange class method) (phenotypic.tune.Knob class method) (phenotypic.tune.score.CompositeScorer class method) (phenotypic.tune.score.GroundTruthMasks class method) (phenotypic.tune.score.QCScorer class method) (phenotypic.tune.score.ReferenceFreeScorer class method) (phenotypic.tune.score.Scorer class method) (phenotypic.tune.score.SupervisedScorer class method) (phenotypic.tune.SearchSpace class method) (phenotypic.tune.strategy.GridConfig class method) (phenotypic.tune.strategy.OptunaConfig class method) (phenotypic.tune.strategy.RandomConfig class method) (phenotypic.tune.strategy.StrategyConfig class method) (phenotypic.tune.Trial class method) (phenotypic.tune.TuningSpec class method) validate_analysis_id() (in module phenotypic.sdk_) validate_array_chunk() (in module phenotypic.sdk_.slurm) validate_obj_count (phenotypic.detect.InoculumDetector attribute) value (phenotypic.refine.RemoveByFeature attribute) VALUE (phenotypic.schema.QUALITY_SE attribute) value (phenotypic.tune.Fixed attribute) VALUE_ROBUST_MEAN (phenotypic.schema.ColorHSV attribute) values() (phenotypic._core._image_parts.accessors._metadata_accessor.MetadataAccessor method) (phenotypic.tune.FloatRange method) (phenotypic.tune.IntRange method) (phenotypic.util.BackgroundMetrics method) (phenotypic.util.ContrastMetrics method) (phenotypic.util.NoiseMetrics method) (phenotypic.util.QualityScores method) (phenotypic.util.StructureMetrics method) VARIANCE (phenotypic.schema.TEXTURE attribute) verbose (phenotypic.abc_.PrefabPipeline attribute) (phenotypic.analysis.LinearCapAndLagModel attribute) (phenotypic.analysis.LinearLagModel attribute) (phenotypic.analysis.LogGrowthModel attribute) (phenotypic.prefab.FilamentousFungiPipeline attribute) (phenotypic.prefab.GridSectionPipeline attribute) (phenotypic.prefab.HeavyOtsuPipeline attribute) (phenotypic.prefab.HeavyRoundPeaksPipeline attribute), [1] (phenotypic.prefab.HeavyWatershedPipeline attribute) (phenotypic.prefab.RoundPeaksPipeline attribute) (phenotypic.prefab.SpImagerPipeline attribute) verified_parquet (phenotypic.sdk_.BundleLayout property) verified_parquet_path() (in module phenotypic.sdk_) VERSION (phenotypic.sdk_.DashboardManifestKey attribute) (phenotypic.sdk_.ProcessingStateKey attribute) VisuShrinkCorrector (class in phenotypic.correction) VisuShrinkEnhancer (class in phenotypic.enhance) vmax() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) vmin() (phenotypic._core._image_parts.accessors._detect_mat_accessor.DetectMatAccessor method) (phenotypic._core._image_parts.accessors._grayscale_accessor.Grayscale method) (phenotypic._core._image_parts.accessors._objmap_accessor.ObjectMap method) (phenotypic._core._image_parts.accessors._objmask_accessor.ObjectMask method) (phenotypic._core._image_parts.accessors._rgb_accessor.ImageRGB method) W wants_subject (phenotypic.abc_.plotting.FigureSpec attribute), [1] warmup_c (phenotypic.tune.ScreeningConfig attribute) warmup_floor (phenotypic.tune.ScreeningConfig attribute) warn (phenotypic.grid.AutoGridFinder attribute) (phenotypic.grid.CenteredAutoGridFinder attribute) (phenotypic.measure.MeasureTexture attribute) warn_threshold (phenotypic.analysis.ExpectedVsDetectedCount attribute) (phenotypic.analysis.GridOccupancy attribute) (phenotypic.analysis.ICC attribute) (phenotypic.analysis.MaxModifiedZScore attribute) (phenotypic.analysis.RelativeMAD attribute) (phenotypic.analysis.ReplicateAgreement attribute) (phenotypic.analysis.TukeyOutlierFraction attribute) warning (phenotypic.tune.GeneralizationReport attribute) WatershedDetector (class in phenotypic.detect) wavelet (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) wavelet_levels (phenotypic.correction.BayesShrinkCorrector attribute) (phenotypic.correction.VisuShrinkCorrector attribute) (phenotypic.enhance.BayesShrinkEnhancer attribute) (phenotypic.enhance.VisuShrinkEnhancer attribute) weights (phenotypic.tune.score.CompositeScorer attribute) well WHITE_PCT (phenotypic.schema.ColorComposition attribute) WhiteTophatEnhance (class in phenotypic.enhance) widget() (phenotypic.abc_.BackgroundSubtraction method) (phenotypic.abc_.ContrastAdjustment method) (phenotypic.abc_.FocusBlob method) (phenotypic.abc_.FocusEdge method) (phenotypic.abc_.GpuDetector method) (phenotypic.abc_.GridCorrector method) (phenotypic.abc_.GridObjectDetector method) (phenotypic.abc_.GridObjectRefiner method) (phenotypic.abc_.GridOperation method) (phenotypic.abc_.ImageCorrector method) (phenotypic.abc_.ImageDenoiser method) (phenotypic.abc_.ImageEnhancer method) (phenotypic.abc_.ImageOperation method) (phenotypic.abc_.MorphologicalFiltering method) (phenotypic.abc_.ObjectDetector method) (phenotypic.abc_.ObjectRefiner method) (phenotypic.abc_.PrefabPipeline method) (phenotypic.abc_.Smoothing method) (phenotypic.abc_.ThresholdDetector method) (phenotypic.correction.BayesShrinkCorrector method) (phenotypic.correction.ColorCorrector method) (phenotypic.correction.ColorDenoise method) (phenotypic.correction.CropImage method) (phenotypic.correction.DenoiseBlockMatch method) (phenotypic.correction.GridAligner method) (phenotypic.correction.PadImage method) (phenotypic.correction.VisuShrinkCorrector method) (phenotypic.detect.CannyDetector method) (phenotypic.detect.ChanVeseDetector method) (phenotypic.detect.CompositeDetector method) (phenotypic.detect.FilamentousFungiDetector method) (phenotypic.detect.FilFinderDetector method) (phenotypic.detect.HysteresisDetector method) (phenotypic.detect.InoculumDetector method) (phenotypic.detect.IsodataDetector method) (phenotypic.detect.LiDetector method) (phenotypic.detect.MadHysteresisDetector method) (phenotypic.detect.ManualGridPointDetector method) (phenotypic.detect.ManualPointDetector method) (phenotypic.detect.MeanDetector method) (phenotypic.detect.MinimumDetector method) (phenotypic.detect.OtsuDetector method) (phenotypic.detect.RankOtsuDetector method) (phenotypic.detect.RoundPeaksDetector method) (phenotypic.detect.SecondaryOtsuDetector method) (phenotypic.detect.SinePeakDetector method) (phenotypic.detect.TriangleDetector method) (phenotypic.detect.TwoKFilamentousDetector method) (phenotypic.detect.UserThreshold method) (phenotypic.detect.WatershedDetector method) (phenotypic.detect.YenDetector method) (phenotypic.enhance.BayesShrinkEnhancer method) (phenotypic.enhance.BlurGauss method) (phenotypic.enhance.CompositeEnhance method) (phenotypic.enhance.ContrastGamma method) (phenotypic.enhance.ContrastLog method) (phenotypic.enhance.ContrastSigmoid method) (phenotypic.enhance.ContrastStretching method) (phenotypic.enhance.EnhanceBlockMatch method) (phenotypic.enhance.EnhanceLocalContrast method) (phenotypic.enhance.FlattenIllumination method) (phenotypic.enhance.FocusBlobLoG method) (phenotypic.enhance.FocusEdgeColorPhase method) (phenotypic.enhance.FocusEdgeFrangi method) (phenotypic.enhance.FocusEdgeHessian method) (phenotypic.enhance.FocusEdgeLaplace method) (phenotypic.enhance.FocusEdgeMeijering method) (phenotypic.enhance.FocusEdgeMonogenicPhase method) (phenotypic.enhance.FocusEdgePhase method) (phenotypic.enhance.FocusEdgeSato method) (phenotypic.enhance.FocusEdgeSobel method) (phenotypic.enhance.FocusEdgeTwoKPhase method) (phenotypic.enhance.GrayOpening method) (phenotypic.enhance.ImageInverter method) (phenotypic.enhance.LocalEdgeDenoise method) (phenotypic.enhance.MedianFilter method) (phenotypic.enhance.NonLocalMeansDenoiser method) (phenotypic.enhance.RankMedianEnhancer method) (phenotypic.enhance.SetDetectMode method) (phenotypic.enhance.SharpenEdgeGauss method) (phenotypic.enhance.StructureSmoothing method) (phenotypic.enhance.SubtractGaussian method) (phenotypic.enhance.SubtractOpening method) (phenotypic.enhance.SubtractRollingBall method) (phenotypic.enhance.SubtractWhiteTophat method) (phenotypic.enhance.VisuShrinkEnhancer method) (phenotypic.enhance.WhiteTophatEnhance method) (phenotypic.grid.GridApply method) (phenotypic.prefab.FilamentousFungiPipeline method) (phenotypic.prefab.GridSectionPipeline method) (phenotypic.prefab.HeavyOtsuPipeline method) (phenotypic.prefab.HeavyRoundPeaksPipeline method) (phenotypic.prefab.HeavyWatershedPipeline method) (phenotypic.prefab.RoundPeaksPipeline method) (phenotypic.prefab.SpImagerPipeline method) (phenotypic.refine.ExtractColonyCore method) (phenotypic.refine.GridAlignmentRefiner method) (phenotypic.refine.GridOversizedObjectRemover method) (phenotypic.refine.KeepNearestCenter method) (phenotypic.refine.KeepSectionLargest method) (phenotypic.refine.ManualRefine method) (phenotypic.refine.MaskClosing method) (phenotypic.refine.MaskDilation method) (phenotypic.refine.MaskErosion method) (phenotypic.refine.MaskFill method) (phenotypic.refine.MaskGradient method) (phenotypic.refine.MaskOpening method) (phenotypic.refine.MaskWhiteTophat method) (phenotypic.refine.MergeFragmentChains method) (phenotypic.refine.NearestNeighborMerger method) (phenotypic.refine.ReduceSectionsByLine method) (phenotypic.refine.RefineBySineFit method) (phenotypic.refine.RemoveBorderObjects method) (phenotypic.refine.RemoveByFeature method) (phenotypic.refine.RemoveGridOutliers method) (phenotypic.refine.RemoveLowCircularity method) (phenotypic.refine.SeparateObjects method) (phenotypic.refine.Skeletonize method) (phenotypic.refine.SmallObjectRemover method) (phenotypic.refine.SmallToLargeMerger method) (phenotypic.refine.Thinning method) (phenotypic.refine.TrimAsymmetry method) (phenotypic.sdk_.LazyWidgetMixin method) width (phenotypic.detect.ManualGridPointDetector attribute) (phenotypic.detect.ManualPointDetector attribute) (phenotypic.detect.RankOtsuDetector attribute) (phenotypic.enhance.GrayOpening attribute) (phenotypic.enhance.MedianFilter attribute) (phenotypic.enhance.RankMedianEnhancer attribute) (phenotypic.enhance.SubtractOpening attribute) (phenotypic.enhance.SubtractWhiteTophat attribute) (phenotypic.enhance.WhiteTophatEnhance attribute) (phenotypic.refine.ManualRefine attribute) (phenotypic.refine.MaskClosing attribute) (phenotypic.refine.MaskDilation attribute) (phenotypic.refine.MaskErosion attribute) (phenotypic.refine.MaskGradient attribute) (phenotypic.refine.MaskOpening attribute) (phenotypic.refine.MaskWhiteTophat attribute) win_size (phenotypic.enhance.LocalEdgeDenoise attribute) winner (phenotypic.tune.ScreeningResult attribute) with_traceback() (phenotypic.grid.CenteredAutoGridFinderFallbackWarning method) (phenotypic.sdk_.exceptions_.ArrayKeyValueShapeMismatchError method) (phenotypic.sdk_.exceptions_.DataIntegrityError method) (phenotypic.sdk_.exceptions_.EmptyImageError method) (phenotypic.sdk_.exceptions_.GrayscaleOutOfRangeError method) (phenotypic.sdk_.exceptions_.GridImageInputError method) (phenotypic.sdk_.exceptions_.IllegalAssignmentError method) (phenotypic.sdk_.exceptions_.IllegalElementAssignmentError method) (phenotypic.sdk_.exceptions_.ImageOperationError method) (phenotypic.sdk_.exceptions_.ImmutableComponentError method) (phenotypic.sdk_.exceptions_.InputShapeMismatchError method) (phenotypic.sdk_.exceptions_.InterfaceError method) (phenotypic.sdk_.exceptions_.InvalidHsvSchemaError method) (phenotypic.sdk_.exceptions_.InvalidMapValueError method) (phenotypic.sdk_.exceptions_.InvalidMaskScalarValueError method) (phenotypic.sdk_.exceptions_.InvalidMaskValueError method) (phenotypic.sdk_.exceptions_.InvalidShapeError method) (phenotypic.sdk_.exceptions_.MetadataKeySpacesError method) (phenotypic.sdk_.exceptions_.MetadataKeyValueError method) (phenotypic.sdk_.exceptions_.MetadataValueNonScalarError method) (phenotypic.sdk_.exceptions_.NoArrayError method) (phenotypic.sdk_.exceptions_.NoComponentError method) (phenotypic.sdk_.exceptions_.NoImageDataError method) (phenotypic.sdk_.exceptions_.NoObjectsError method) (phenotypic.sdk_.exceptions_.NoOutputError method) (phenotypic.sdk_.exceptions_.ObjectNotFoundError method) (phenotypic.sdk_.exceptions_.OperationFailedError method) (phenotypic.sdk_.exceptions_.OperationIntegrityError method) (phenotypic.sdk_.exceptions_.OutputValueError method) (phenotypic.sdk_.exceptions_.PhenoTypicError method) (phenotypic.sdk_.exceptions_.UnknownError method) (phenotypic.sdk_.exceptions_.UnsupportedFileTypeError method) (phenotypic.sdk_.exceptions_.UnsupportedImageFormat method) (phenotypic.sdk_.exceptions_.UuidAssignmentError method) (phenotypic.sdk_.exceptions_.UUIDReassignmentError method) within_group_caveat (phenotypic.tune.GeneralizationReport attribute) write_slurm_array_script() (in module phenotypic.sdk_.slurm) X x_COEFF_VARIANCE (phenotypic.schema.Colorxy attribute) X_COEFF_VARIANCE (phenotypic.schema.ColorXYZ attribute) x_headers() (phenotypic.schema.Colorxy class method) x_MAXIMUM (phenotypic.schema.Colorxy attribute) X_MAXIMUM (phenotypic.schema.ColorXYZ attribute) x_MEAN (phenotypic.schema.Colorxy attribute) X_MEAN (phenotypic.schema.ColorXYZ attribute) x_MEDIAN (phenotypic.schema.Colorxy attribute) X_MEDIAN (phenotypic.schema.ColorXYZ attribute) x_MINIMUM (phenotypic.schema.Colorxy attribute) X_MINIMUM (phenotypic.schema.ColorXYZ attribute) x_Q1 (phenotypic.schema.Colorxy attribute) X_Q1 (phenotypic.schema.ColorXYZ attribute) x_Q3 (phenotypic.schema.Colorxy attribute) X_Q3 (phenotypic.schema.ColorXYZ attribute) x_STDDEV (phenotypic.schema.Colorxy attribute) X_STDDEV (phenotypic.schema.ColorXYZ attribute) xy (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor property) XYZ (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor property) XYZ_D65 (phenotypic._core._image_parts.accessors._color_accessor.ColorAccessor property) Y y_COEFF_VARIANCE (phenotypic.schema.Colorxy attribute) Y_COEFF_VARIANCE (phenotypic.schema.ColorXYZ attribute) y_headers() (phenotypic.schema.Colorxy class method) y_MAXIMUM (phenotypic.schema.Colorxy attribute) Y_MAXIMUM (phenotypic.schema.ColorXYZ attribute) y_MEAN (phenotypic.schema.Colorxy attribute) Y_MEAN (phenotypic.schema.ColorXYZ attribute) y_MEDIAN (phenotypic.schema.Colorxy attribute) Y_MEDIAN (phenotypic.schema.ColorXYZ attribute) y_MINIMUM (phenotypic.schema.Colorxy attribute) Y_MINIMUM (phenotypic.schema.ColorXYZ attribute) y_Q1 (phenotypic.schema.Colorxy attribute) Y_Q1 (phenotypic.schema.ColorXYZ attribute) y_Q3 (phenotypic.schema.Colorxy attribute) Y_Q3 (phenotypic.schema.ColorXYZ attribute) y_STDDEV (phenotypic.schema.Colorxy attribute) Y_STDDEV (phenotypic.schema.ColorXYZ attribute) YELLOW_PCT (phenotypic.schema.ColorComposition attribute) YenDetector (class in phenotypic.detect) Z Z_COEFF_VARIANCE (phenotypic.schema.ColorXYZ attribute) Z_MAXIMUM (phenotypic.schema.ColorXYZ attribute) Z_MEAN (phenotypic.schema.ColorXYZ attribute) Z_MEDIAN (phenotypic.schema.ColorXYZ attribute) Z_MINIMUM (phenotypic.schema.ColorXYZ attribute) Z_Q1 (phenotypic.schema.ColorXYZ attribute) Z_Q3 (phenotypic.schema.ColorXYZ attribute) Z_STDDEV (phenotypic.schema.ColorXYZ attribute) zfill() (phenotypic.abc_.MeasurementInfo method) (phenotypic.schema.ACQUISITION_METADATA method) (phenotypic.schema.BBOX method) (phenotypic.schema.ColorComposition method) (phenotypic.schema.ColorHSV method) (phenotypic.schema.ColorLab method) (phenotypic.schema.Colorxy method) (phenotypic.schema.ColorXYZ method) (phenotypic.schema.CONDITION_METADATA method) (phenotypic.schema.CULTURE_METADATA method) (phenotypic.schema.CURATION method) (phenotypic.schema.EDGE_CORRECTION method) (phenotypic.schema.ErrorCategory method) (phenotypic.schema.EXPERIMENT_METADATA method) (phenotypic.schema.GENETIC_METADATA method) (phenotypic.schema.GRID method) (phenotypic.schema.GRID_LINREG_STATS method) (phenotypic.schema.GRID_SPREAD method) (phenotypic.schema.INTENSITY method) (phenotypic.schema.LINEAR_CAP_AND_LAG_MODEL method) (phenotypic.schema.LINEAR_LAG_MODEL method) (phenotypic.schema.LOG_GROWTH_MODEL method) (phenotypic.schema.MeasurementInfo method) (phenotypic.schema.METADATA method) (phenotypic.schema.METADATA_MATCH method) (phenotypic.schema.MODEL_METRICS method) (phenotypic.schema.NEIGHBOR_DIST method) (phenotypic.schema.OBJECT method) (phenotypic.schema.ORIENTATION_ZONE_DIAGNOSTIC method) (phenotypic.schema.ORIENTATION_ZONE_PRIMARY method) (phenotypic.schema.PLATE_METADATA method) (phenotypic.schema.QUALITY_CHECK method) (phenotypic.schema.QUALITY_COUNT method) (phenotypic.schema.QUALITY_ICC method) (phenotypic.schema.QUALITY_MAD method) (phenotypic.schema.QUALITY_OCCUPANCY method) (phenotypic.schema.QUALITY_SE method) (phenotypic.schema.QUALITY_TUKEY method) (phenotypic.schema.QUALITY_ZMAX method) (phenotypic.schema.RADIAL_EXPANSION method) (phenotypic.schema.REMBI_MODULE method) (phenotypic.schema.SAMPLE_METADATA method) (phenotypic.schema.SHAPE method) (phenotypic.schema.SIZE method) (phenotypic.schema.STUDY_METADATA method) (phenotypic.schema.SYMMETRIC_ZONES method) (phenotypic.schema.TEXTURE method) (phenotypic.sdk_.constants_.ConstantLabels method) (phenotypic.sdk_.constants_.GAMMA_ENCODINGS method) (phenotypic.sdk_.constants_.PIPE_STATUS method)
