Tutorials

Contents

• Input and output files description
  • Input files
    • meta data file
  • Output files
    • NN-dir
    • GNN-dir
    • NT-dir
• Calculating niche trajectories with ONTraC
  • Preparation
  • Running ONTraC
• Visualizations
  • Preparation
  • Spatial niche cluster loadings distribution
  • Spatial maximum niche cluster distribution
  • Niche cluster connectivity
  • Niche cluster proportion
  • Cell type distribution in each niche cluster
  • Spatial niche-level NT score distribution
  • Spatial cell-level NT score distribution
  • Cell-level NT score distribution for each cell type