MOFA+ (Claude Skill)

Multi-Omics Factor Analysis v2 (MOFA+) with mofapy2.

Type	Claude Skill
Supplier	jaechang-hits (community OSS, CC BY 4.0)
Availability	GA — part of the BixBench-evaluated SciAgent-Skills collection
Pricing	Free / OSS (LGPL-3.0)
Capabilities	Read/Write — Claude runs the skill’s Python locally (Bash), not as an MCP tool

How to install

SciAgent-Skills is not an npm package — skills are plain markdown read directly by the agent (no npx/npm).

• Claude Code — clone and load as a plugin:

  git clone https://github.com/jaechang-hits/SciAgent-Skills
  

  Then inside Claude Code run /plugin install sciagent-skills (verify it appears under /plugin → Installed). Clone into your project directory so Claude Code picks the skills up via CLAUDE.md.

• Manual / other agents — point the agent at the skill file directly:

  cp -r SciAgent-Skills/skills/systems-biology-multiomics/mofaplus-multi-omics ~/.claude/skills/
  

  The skill declares its own Python dependencies in its SKILL.md; install them when prompted on first use.

What it does

Multi-Omics Factor Analysis v2 (MOFA+) with mofapy2. Jointly decompose omics layers (scRNA, ATAC, proteomics, methylation) into latent factors capturing major variation. Multi-group designs. AnnData views → MOFA object → train → variance explained → correlate factors with metadata → visualize/cluster → enrich top loadings.

Primary use cases: Multi-Omics Factor Analysis v2 (MOFA+) with mofapy2.

Notes

Distributed as a SKILL.md (plus code examples) in the SciAgent-Skills collection — Claude executes it locally via Bash/Python rather than as an MCP server. Upstream license: LGPL-3.0. The skill directory upstream is skills/systems-biology-multiomics/mofaplus-multi-omics.

Sources

• jaechang-hits/SciAgent-Skills
• skills/systems-biology-multiomics/mofaplus-multi-omics/SKILL.md

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