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Real file from a public repo · synced Sep 3, 2026

scvi-tools

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.

anthropics/knowledge-work-plugins2.0k installsApache-2.0

Works with

Claude CodeCursorCodex CLIGitHub CopilotGemini CLI

Install in three steps

  1. 1

    Download the ZIP

    One file per agent, plus INSTALL.md with the exact paths below.

  2. 2

    Claude Code: copy SKILL.md into your skills folder

    .claude/skills/scvi-tools/SKILL.md    # this project
    ~/.claude/skills/scvi-tools/SKILL.md   # every project
  3. 3

    Other agents: use the matching file

    skill.mdc goes in Cursor’s .cursor/rules/. AGENTS.md works as GitHub Copilot instructions, a legacy .cursorrules, or a Codex / Gemini CLI instructions file.

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