Run Gsea
Description
--- description: Pathway enrichment on a ranked gene list (GSEA or ORA). Use when the user asks which pathways are enriched, wants GSEA/fgsea, or has DE results to interpret biologically. argument-hint: [de-results-file] [gene-set-collection] allowed-tools: Read Grep Glob Bash(Rscript *) --- Run pathway enrichment on `$0` against the `$1` collection (default: MSigDB Hallmark). Follow the `cancer-multiomics` skill. Decide the method first: ``` ranked list, all genes -> GSEA (fgsea). Uses th
Installation
Installs to ~/.claude/commands/zamushwani-biomedical-ai-skills-run-gsea.md
mkdir -p ~/.claude/commands && curl -fsSL https://raw.githubusercontent.com/zamushwani/biomedical-ai-skills/HEAD/.claude/commands/run-gsea.md -o ~/.claude/commands/zamushwani-biomedical-ai-skills-run-gsea.md Restart Claude Code, or start a new session, for it to be picked up.
Full documentation available on GitHub
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