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 in...
This skill ships only metadata — no inline instructions. See the source repo for details.
Install this skill
One command (all agents)
Runs the npx skills CLI which auto-detects every AI coding agent you have installed (Claude Code, Cursor, Codex, OpenCode, Windsurf, Copilot, and 51 more).
npx skills add https://github.com/anthropics/knowledge-work-pluginsAlternative: shorthand form
npx skills add anthropics/knowledge-work-pluginsInstall to a specific agent
Pick the agent you use. The CLI writes the skill to that agent's standard skill directory.
npx skills add anthropics/knowledge-work-plugins --agent claude-codenpx skills add anthropics/knowledge-work-plugins --agent cursornpx skills add anthropics/knowledge-work-plugins --agent codexnpx skills add anthropics/knowledge-work-plugins --agent opencodenpx skills add anthropics/knowledge-work-plugins --agent github-copilotnpx skills add anthropics/knowledge-work-plugins --agent windsurfManual install (no CLI)
Prefer to skip the CLI? Clone the repo and drop the skill folder into your agent's skills directory.
git clone https://github.com/anthropics/knowledge-work-plugins.gitcp -r knowledge-work-plugins ~/.claude/skills/ For other agents, replace ~/.claude/skills/ with their skill directory — see the full list.
Use it
Once installed, ask your agent to "use the scvi-tools skill" or describe what you want (e.g. "Deep learning for single-cell analysis using scvi-tools. This skill should be us"). Most agents auto-discover the skill from its SKILL.md description — no slash command needed.
npx skills. Skill files are MIT-style permissive by default — check the source repo for the actual license.
SKILL.md source
--- name: scvi-tools description: 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) CI ---
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