Help & Reference

Notes here.

• Glossary
• SpaceTx Format
  • Input Data Formats
    • SpaceTx Image Format Specification
      • Introduction
      • Format Specification
      • Experiment
      • Manifest
      • Field of View
      • Codebook
    • JSON Schemas
  • Output Formats
    • IntensityTable
      • Data
      • Table Metadata
      • Feature Metadata
      • Implementation
      • Serialization
    • ExpressionMatrix
      • Data
      • Metadata
      • Implementation
      • Serialization
    • DecodedSpots
      • Required Columns
      • Optional Columns
      • Implementation
      • Serialization
    • SegmentationMask
      • Implementation
      • Serialization
• Working with Starfish Outputs
• Citing Starfish
• License
• Roadmap
  • What we are building now
    • Image segmentation improvements #1321
    • Affine image registration #1320
    • Expanded support for image loading #1603
    • Comprehensive support for 3D image processing #53
    • Access to datasets #1677
    • Ensuring reliability and performance #1309
    • Refreshed Documentation #858
  • What’s on the horizon
    • Support for proteomics assays #1674
    • Support for segmentation-free cell assignment #1675