Tooluniverse Metabolomics Analysis

Handles the full metabolomics pipeline from LC-MS or GC-MS peak tables through to pathway enrichment and multi-omics integration. You get QC filtering (CV thresholds, blank subtraction), normalization options (TIC, PQN, internal standards), standard differential analysis with FDR correction, and KEGG/Reactome pathway mapping. The workflow is opinionated about thresholds (CV < 30%, blank ratio > 3x, |log2FC| > 1.0) and pushes you to look up metabolite identities and pathway memberships rather than guess. Useful if you need to connect metabolite changes to enzyme expression or combine with transcriptomics data. The emphasis on normalization method choice and batch effect correction reflects real pain points in untargeted metabolomics where technical variation easily swamps biology.

Install to Claude Code

npx -y skills add mims-harvard/tooluniverse --skill tooluniverse-metabolomics-analysis --agent claude-code