topo — Topology-aware Instance Segmentation

topo generates 3D vector fields that point toward instance centers using heat-equation diffusion, then converts those flows into instance labels via Euler integration and convergence clustering.

Tutorials

• Full-Volume Instance Segmentation
  • 1. Create Synthetic Data
  • 2. Generate Diffusion Flows
  • 3. Postprocess: Flow Tracking + Clustering
  • Summary
• Tiled Stitching: Processing Large Volumes in Blocks
  • 1. Create Synthetic Data
  • 2. Full-Volume Reference
  • 3. Split into Overlapping Sub-Crops
  • 4. Generate Flows Per Sub-Crop
  • 5. Stitch Flows with Boundary-Aware Cosine Blending
  • 6. Postprocess the Stitched Flow
  • 7. Compare Results
  • Summary

API Reference

• API Reference
  • topo