---
stable_id: skills/knowledge-work-plugins-bio-research-skills-scvi-tools-skill
type: skills
title: scvi-tools
summary: Deep learning for single-cell analysis using scvi-tools. This skill
  should be used when users need (1) data integration and batch correction with
  scVI/scANVI, (2) ATAC-seq analysis with PeakVI, (3) CITE-seq multi-modal
  analysis with totalVI, (4) multiome RNA+ATAC analysis with MultiVI, (5)
  spatial transcriptomics deconvolution with DestVI, (6) label transfer and
  reference mapping with scANVI/scArches, (7) RNA velocity with veloVI, or (8)
  any deep learning-based single-cell method. Triggers include mentions of scVI,
  scANVI, totalVI, PeakVI, MultiVI, DestVI, veloVI, sysVI, scArches, variational
  autoencoder, VAE, batch correction, data integration, multi-modal, CITE-seq,
  multiome, reference mapping, latent space.
tags:
  - source-knowledge-work-plugins
  - plugin-bio-research
  - plugin-component-skills
  - plugin-skill
  - category-search-research
source_url: https://raw.githubusercontent.com/anthropics/knowledge-work-plugins/main/bio-research/skills/scvi-tools/SKILL.md
license: ""
upstream_ref: https://github.com/anthropics/knowledge-work-plugins/blob/main/bio-research/skills/scvi-tools/SKILL.md
github_stars: null
github_forks: null
github_is_organization: null
retrieved_at: 2026-06-11T08:31:58.040Z
content_sha256: 03a69b32b77db86afe5f87b75db2ae4c92b03b6e9e16e2c5e66cde2d4ad9c5bc
---
