Free SKILL.md scraped from GitHub. Clone the repo or copy the file directly into your Claude Code skills directory.
npx versuz@latest install a5c-ai-babysitter-library-specializations-domains-science-bioinformatics-skills-magit clone https://github.com/a5c-ai/babysitter.gitcp babysitter/SKILL.MD ~/.claude/skills/a5c-ai-babysitter-library-specializations-domains-science-bioinformatics-skills-ma/SKILL.md---
name: maxquant-processor
description: MaxQuant mass spectrometry skill for protein identification and quantification
allowed-tools:
- Read
- Write
- Glob
- Grep
- Edit
- WebFetch
- WebSearch
- Bash
metadata:
version: "1.0"
category: bioinformatics
tags:
- proteomics
- mass-spectrometry
- quantification
- identification
---
# MaxQuant Processor Skill
## Purpose
Provide MaxQuant mass spectrometry analysis for protein identification and quantification.
## Capabilities
- Andromeda search engine execution
- Label-free quantification (LFQ)
- TMT/iTRAQ labeled quantification
- Match between runs
- FDR control and filtering
- PTM site localization
## Usage Guidelines
- Configure search parameters for experiment type
- Select appropriate quantification method
- Enable match between runs for improved quantification
- Apply FDR filtering at protein and peptide level
- Localize PTM sites accurately
- Document database and parameter versions
## Dependencies
- MaxQuant
- MSFragger
- Proteome Discoverer
## Process Integration
- Mass Spectrometry Proteomics Pipeline (ms-proteomics-pipeline)
- Multi-Omics Data Integration (multi-omics-integration)