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⇱ How to use the scVI-Tools bioinformatics skill bundle with Claude | Claude

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How to use the scVI-Tools bioinformatics skill bundle with Claude

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    Life Sciences
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    https://claude.com/resources/tutorials/how-to-use-the-scvi-tools-bioinformatics-skill-bundle-with-claude

What is the scVI-Tools skill bundle?

A single skill that provides comprehensive access to deep learning-based single-cell analysis using scvi-tools and the scVerse ecosystem, covering batch integration (scVI, scArches), cell type annotation (SCANVI, CellAssign), spatial transcriptomics deconvolution (DestVI, Tangram, cell2location, Stereoscope), chromatin accessibility analysis (PeakVI, scBasset), multimodal data integration (TotalVI for CITE-seq, MultiVI for RNA+ATAC), and perturbation analysis (contrastiveVI). Each skill provides step-by-step workflows, parameter tuning guidance, and troubleshooting for its respective scvi-tools model.

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Who should use the scVI-Tools skill bundle?

This skill is designed for scientists analyzing single-cell, including spatial, epigenetic and scRNA, data who want to leverage deep learning methods from scvi-tools without needing to read through extensive documentation—particularly useful for researchers working with multi-batch experiments, multimodal assays (CITE-seq, multiome), spatial transcriptomics, or scATAC-seq who need guidance on model selection, parameter tuning, and best practices.

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How to access the skills in Claude Code

Command 

/plugin marketplace add anthropics/life-sciences

/plugin install scvi-tools@life-sciences‍
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How to access the skill in Claude.ai

For Organization Owners (Team and Enterprise)

  1. Download the ZIP for the scvi-tools skill here
  2. From Claude.ai, navigate to Admin settings > Capabilities > Skills
  3. Make sure Skills is activated for your organization
  4. Click “Organization skills library”
  5. Click “+Add”
  6. Upload the skill zip file

Learn about provisioning and managing skills for your organization

For Individual Claude Users

  1. Download the ZIP file for the scvi-tools skill here
  2. From Claude.ai, navigate to Settings > Capabilities > Skills (if Skills is not available, contact your team admin)
  3. Click “Upload skill”
  4. Upload the skill zip file

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