Use Cases

Practical guides for common analysis workflows with spatialvi-tools.

• Saving and Loading Models
  • Saving
  • Loading
  • Transferring to a new dataset (scArches / ARCHES)
• Training Configuration
  • Basic training
  • Adjusting learning rate and batch size
  • KL annealing
  • GPU training
  • Monitoring training
• Downstream Analysis
  • Latent space
  • Clustering
  • Deconvolution (DestVI)
  • Niche prediction (scVIVA)
  • Differential expression