Example 2: human embryonic heart dataset.

• Run STitch3D on the human heart dataset
  • Import packages
  • Preprocessing
  • Running STitch3D model
  • Visualizing results in 2D
• 3D visualization of STitch3D’s identified anatomical regions
• 3D visualization of STitch3D’s inferred spatial distributions of cardiomyocytes
• 3D visualization of STitch3D’s spatiotemporal cell-type deconvolution results
• 3D visualization of gene expression patterns
• Differentially expressed gene analysis for developing human hearts
  • Load STitch3D results
  • Locate smooth muscle cell-enriched regions and visualize in 2D
  • Select highly expressed genes in smooth muscle cell-enriched regions
  • Find differentially expressed genes between 6 PCW and 9 PCW hearts