Biomni (Claude Skill)

A Claude Code skill that wraps the Stanford SNAP Lab Biomni agent so Claude can autonomously plan and execute multi-step biomedical research tasks across genomics, drug discovery, molecular biology, and clinical analysis.

   
Type Claude Skill
Supplier Stanford SNAP Lab
Availability GA
Pricing Free / OSS (Apache-2.0; some bundled tools/databases carry more restrictive commercial licenses)
Capabilities Read/Write — generates and executes analysis code, retrieves from an integrated biomedical data lake

How to install

The skill is distributed in the davila7/claude-code-templates collection.

  • Claude Code — install the skill: 
    npx skills add https://github.com/davila7/claude-code-templates --skill biomni
  • Prerequisite — install the Biomni package the skill drives (the skill is a workflow wrapper; the agent itself is the biomni Python package): 
    uv pip install biomni --upgrade

    (or pip install biomni --upgrade)

  • Prerequisite — API key: set ANTHROPIC_API_KEY (recommended) or another supported provider key (OpenAI, Azure OpenAI, Google Gemini, Groq, AWS Bedrock).
  • First-run data lake: ~11 GB of biomedical databases downloads automatically to your chosen data path on first agent initialization.

What it does

Wraps the Biomni A1 agent, which combines LLM reasoning with retrieval-augmented planning and code execution over an integrated biomedical data lake. Typical workflows:

  • CRISPR screening design and gene prioritization
  • Single-cell RNA-seq analysis with cell-type annotation
  • Drug ADMET prediction and compound optimization
  • GWAS variant interpretation and pathway enrichment
  • Rare-disease diagnosis and clinical genomics
  • Lab-protocol optimization

Primary use cases: Multi-step biomedical reasoning, autonomous analysis-pipeline generation, cross-domain research spanning genomics, drug discovery, and clinical analysis.

Notes

The official snap-stanford/Biomni repo ships the agent as a Python package, not as a SKILL.md; the Claude Code skill is the community davila7/claude-code-templates wrapper, which is why both an npx skills add step and a pip/uv install of biomni are required.

Security: Biomni executes LLM-generated code with full system privileges and can access files, network, and system commands. Run it in an isolated/sandboxed environment and avoid exposing sensitive data or credentials. Apache-2.0 covers the framework, but some integrated tools and databases carry more restrictive commercial terms — check before commercial use.

Sources

Installed this tool?

Share feedback — install path, OS, errors, workarounds. The form opens with this tool pre-selected and a link back to this page.