Tutorials

Tutorials

• Projecting Osteogenic Datasets onto Differentiation Atlas and OPCST Model Using TrajAtlas
  • Import packages & data
  • Projection
  • Visualize pseudotemporal gene expression patterns across multiple trajectories.
• Differential Abundance with TrajAtlas
  • Setup
  • About
  • Datasets
  • Building KNN graph (standard milo pipeline)
  • Differential abundance testing
  • Visualization
• Differential Expression with TrajAtlas
  • Setup
  • Datasets
  • Plot
• Detect pseudotemporal gene modules with TRAVMap
  • Setup
  • About pseudotemporal gene modules
  • Preprocess
  • Gene module identifiaction
  • Plot pseudotemporal gene expression heatmap
• TrajAtlas Meets Gene Expression Patterns
  • cNMF pipeline
  • TrajAtlas analysis
• TrajAtlas meets Spatial Omic
  • Setup
  • Statical test
  • Visualization
• TrajAtlas meets Gene Set Scoring
  • Introduction
  • Set up
  • Pathway inference
  • Run TrajAtlas