Welcome to RAFT-UP’s documentation!

Contents:

• Installation
  • Main RAFT-UP environment
  • Optional Mayavi environment
• Tutorials
  • SOMDE Robust
  • DLPFC Gene Cost by SOMDE
  • Alignment Step 1: Downsampling
  • Alignment Step 2: Full-Resolution Recovery
  • Plot with Mayavi
• Experiments
  • Full slice alignment (Adjacent DLPFC slices)
  • Full slice alignment (Far-apart DLPFC slices)
  • Full slice alignment (Adjacent MERFISH slices)
  • Full slice alignment (Far-apart MERFISH slices)
  • Overlapping-window alignment (synthetic regular window)
  • Overlapping-window alignment (synthetic irregular window)
  • Spatiotemporal trajectories across developmental stages
  • Spatially preserving analysis of cell-cell communication across slices

Indices and tables

• Index

• Module Index

• Search Page