Module Documentation

• pipeline
  • project
    • Project
      • Project
  • segmentation
    • Segmentation
      • Segmentation
    • ShardedSegmentation
      • ShardedSegmentation
  • segmentation workflows
    • WGASegmentation
      • WGASegmentation.process()
    • ShardedWGASegmentation
      • ShardedWGASegmentation.method
    • DAPISegmentation
      • DAPISegmentation.process()
    • ShardedDAPISegmentation
      • ShardedDAPISegmentation.method
    • DAPISegmentationCellpose
      • DAPISegmentationCellpose.process()
    • ShardedDAPISegmentationCellpose
      • ShardedDAPISegmentationCellpose.method
    • CytosolSegmentationCellpose
      • CytosolSegmentationCellpose.process()
    • ShardedCytosolSegmentationCellpose
      • ShardedCytosolSegmentationCellpose.method
    • CytosolSegmentationDownsamplingCellpose
      • CytosolSegmentationDownsamplingCellpose.process()
    • ShardedCytosolSegmentationDownsamplingCellpose
      • ShardedCytosolSegmentationDownsamplingCellpose.method
    • CytosolOnlySegmentationCellpose
    • Sharded_CytosolOnly_Cellpose_Segmentation
      • Sharded_CytosolOnly_Cellpose_Segmentation.method
    • CytosolOnly_Segmentation_Downsampling_Cellpose
      • CytosolOnly_Segmentation_Downsampling_Cellpose.process()
    • Sharded_CytosolOnly_Segmentation_Downsampling_Cellpose
      • Sharded_CytosolOnly_Segmentation_Downsampling_Cellpose.method
  • extraction
    • HDF5CellExtraction
      • HDF5CellExtraction
  • classification
    • MLClusterClassifier
      • MLClusterClassifier
    • CellFeaturizer
      • CellFeaturizer
  • selection
    • LMDSelection
      • LMDSelection
• processing
  • images
  • masks
• processing
  • images
  • masks
• tools
  • parsing
  • stitching
    • Parameters:
  • ml
    • datasets
      • HDF5SingleCellDataset
      • HDF5SingleCellDatasetRegression
      • HDF5SingleCellDatasetRegressionSubset
    • metrics
      • precision()
      • recall()
    • models
      • VGGBase
      • VGG1
      • VGG2
    • plmodels
      • MultilabelSupervisedModel
    • pretrained_models
      • autophagy_classifier1_0()
      • autophagy_classifier2_0()
      • autophagy_classifier2_1()
    • transforms
      • RandomRotation
      • GaussianNoise
      • GaussianBlur
      • ChannelReducer
      • ChannelSelector
    • utils
      • combine_datasets_balanced()
      • split_dataset_fractions()