Maxquant Processor

MaxQuant mass spectrometry skill for protein identification and quantification

a5c-ai Updated 1.7k repo stars

File contents

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)

a5c-ai/babysitter/tree/main/library/specializations/domains/science/bioinformatics/skills/maxquant-processor commit af63b38bc0

Frequently asked questions

npx skillmds@latest add a5c-ai/maxquant-processor