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claude-codescience

Babysitter maxquant-processor

MaxQuant mass spectrometry skill for protein identification and quantification

install
source · Clone the upstream repo
git clone https://github.com/a5c-ai/babysitter
Claude Code · Install into ~/.claude/skills/
T=$(mktemp -d) && git clone --depth=1 https://github.com/a5c-ai/babysitter "$T" && mkdir -p ~/.claude/skills && cp -r "$T/library/specializations/domains/science/bioinformatics/skills/maxquant-processor" ~/.claude/skills/a5c-ai-babysitter-maxquant-processor && rm -rf "$T"
manifest: library/specializations/domains/science/bioinformatics/skills/maxquant-processor/SKILL.md
tags
#mass-spectrometry#proteomics#quantification#identification#bioinformatics
source content

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)