Claude Code Agent Skills for proteomics data analysis, from the Mann Labs.
These skills bring proteomics-specific expertise to quantitative mass-spectrometry data. They handle the differences between search engines and guide a rigorous analysis workflow built for protein-level data.
/plugin marketplace add MannLabs/proteomics-agent-skills
/plugin install proteomics@proteomics-agent-skills
Once installed, the skills activate automatically when relevant, or you can
invoke one explicitly, e.g. /proteomics:using-proteomics-skills.
To update later, after new skills are pushed:
/plugin marketplace update proteomics-agent-skills
/plugin update proteomics@proteomics-agent-skills
You can also install the skills manually by copying them into your Claude Code skills directory:
git clone https://github.com/MannLabs/proteomics-agent-skills
cp -r proteomics-agent-skills/plugins/proteomics/skills/* ~/.claude/skills/
Skills placed under ~/.claude/skills/ are available across all projects;
copy them into a project's .claude/skills/ instead to scope them to that
project. Restart Claude Code (or reload skills) to pick them up.
The proteomics plugin bundles the following skills:
| Skill | Purpose |
|---|---|
using-proteomics-skills |
Meta-skill: discover, sequence, and orchestrate an end-to-end analysis workflow |
reading-proteomics-data |
Read PSM tables / protein matrices and map columns to standard names |
performing-proteomics-quality-control |
Remove outlier samples and unsupported features |
normalizing-proteomics-data |
Assess the need for and apply intensity normalization |
imputing-proteomics-data |
Impute missing values for downstream analyses |
correcting-proteomics-batch-effects |
Diagnose and correct batch effects |
performing-statistical-analysis |
Differential expression analysis (t-tests, ANOVA, FDR, volcano plots) |
interpreting-biological-results |
ORA / GSEA, STRING / UniProt annotation |
formulating-biological-findings |
Draw biological and clinical conclusions |
.claude-plugin/
marketplace.json # marketplace manifest
plugins/
proteomics/
.claude-plugin/plugin.json # plugin manifest
skills/
<skill-name>/SKILL.md # one directory per skill
Apache-2.0 — see LICENSE.