scvi-tools

Features and purpose

Deep generative models for single-cell omics. Use when you need probabilistic batch correction (scVI), transfer learning, differential expression with uncertainty, or multi-modal integration (TOTALVI, MultiVI). Best for advanced modeling, batch effects, multimodal data. For standard analysis pipelines use scanpy.

Quick start

Follow the repository instructions for this skill and your agent. Review the files and dependencies before adding it to your workflow.