Microbe

Use when the user has a 16S or ITS feature table plus taxonomy and metadata and needs alpha/beta diversity, composition bars, differential abundance, co-occurrence networks, random-forest biomarkers, or a taxonomy tree. Drive the microbe MCP tools with local Rscript.

MiniMax AI 73a8093 809 B Updated 12.9k repo stars

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microbe

Use the microbe MCP tools. Do not reimplement vegan/DESeq2 plots in Python.

Typical order

  1. microbe_env
  2. microbe_alpha, microbe_beta
  3. microbe_composition, microbe_diff
  4. microbe_network, microbe_rf, microbe_corr, microbe_tree as requested

Expected columns: feature_id + sample counts; taxonomy ranks or a QIIME semicolon string; sample_name + group.

Missing R or packages: return the tool's repair command. This Plugin does not go from raw reads to ASVs.

minimax-ai/minimax-code-plugins/tree/main/plugins/Presisitence/microbe/skills/microbe commit 73a8093b0f

Frequently asked questions

npx skillmds@latest add minimax-ai/microbe