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Contents:

  • Installation
  • Command Line Interface
  • Segmentation Options
    • Overview
    • Segmentation Algorithm JSON File Structure
    • Segmentation Task Definition
    • Task Fusion Definition
    • Watershed Options
    • Cellpose Options
  • Output Data Formats
  • Analysis Vignettes
  • Experimental Features
Vizgen Post-processing Tool
  • Segmentation Options
  • View page source

Segmentation Options

  • Overview
  • Segmentation Algorithm JSON File Structure
  • Segmentation Task Definition
    • task_id
    • segmentation_family
    • entity_types_detected
    • z_layers
    • Properties and Parameters
    • task_input_data
    • polygon_parameters
  • Task Fusion Definition
  • Watershed Options
    • Input Data
    • Watershed Model Properties
    • Watershed Model Parameters
  • Cellpose Options
    • Input Data
    • Cellpose Model Properties
    • Cellpose Model Parameters
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