# scvi-tools

> Deep learning for single-cell analysis using 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.

- Type: Skill
- Made by: anthropics
- Category: Research
- Formats: Skills
- Version: 73530f2
- Source: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools
- Page: https://pluginboard.ai/skills/scvi-tools-anthropics

## Works with

- ChatGPT
- Claude
- Gemini
- GitHub Copilot
- Cursor
- Claude Code
- Codex
- Antigravity
- Gemini CLI
- Replit
- OpenClaw
- OpenCode
- Hermes Agent

## Install

### ChatGPT

In ChatGPT: Download the scvi-tools folder and zip it, then Plugins → Skills → Create → Upload from your computer. Business and Enterprise plans.

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Claude

In Claude (web or desktop): Download the scvi-tools folder and zip the folder itself, then upload it in Customize → Skills.

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Gemini

In Gemini: Download the scvi-tools folder, then at gemini.google.com click Customize → Skills → Create → Upload and pick the folder (or a .zip of it).

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### GitHub Copilot

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.copilot/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Cursor

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.cursor/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Claude Code

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.claude/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

Or all of Bio Research, in Claude Code:

```text
/plugin marketplace add anthropics/knowledge-work-plugins
/plugin install bio-research@knowledge-work-plugins
```

### Codex

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.agents/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Antigravity

In Antigravity: Copy the scvi-tools folder into ~/.gemini/config/skills (Antigravity app and IDE) or ~/.gemini/antigravity-cli/skills (Antigravity CLI).

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Gemini CLI

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.gemini/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Replit

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools .agents/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### OpenClaw

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.openclaw/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### OpenCode

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.config/opencode/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

### Hermes Agent

Run in your terminal:

```shell
npx -y degit anthropics/knowledge-work-plugins/bio-research/skills/scvi-tools ~/.hermes/skills/scvi-tools
```

View the folder on GitHub: https://github.com/anthropics/knowledge-work-plugins/tree/HEAD/bio-research/skills/scvi-tools

---
From Pluginboard (https://pluginboard.ai).