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@a5c-ai/maxquant-processor

A

MaxQuant mass spectrometry skill for protein identification and quantification

skillclaude

Install

agr install @a5c-ai/maxquant-processor --target claude

Writes 1 file into .claude/skills/, pinned to git-f616d33f.

  • .claude/skills/maxquant-processor/SKILL.md

Document

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 graph: domains: [domain:bioinformatics] specializations: [specialization:biomedical-informatics] skillAreas: [skill-area:statistical-analysis, skill-area:python-data-pipelines, skill-area:data-analysis] workflows: [workflow:experiment-design] roles: [role:research-scientist, role:lab-technician]

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)

Trustgrade A

  • passBody integrity

    Whether the stored document is plausibly the kind of file the artifact declares, rather than something fetched by mistake.

  • passType matchnot applicable to this artifact type

    Whether the artifact is really the kind of thing its metadata claims it is.

  • passFreshness

    How long since the source repository was last pushed to.

  • passPrompt injection

    Scans the artifact's own text for instructions aimed at your agent rather than at you.

  • passLicense

    Whether the source repository declares an SPDX license permissive enough to redistribute.

How the grade is calculated

Each check contributes 0 points when it passes, 1 when it warns, and 2 when it fails. The total maps to a letter:

  • Aevery check passed
  • Bone warning
  • Ctwo warnings
  • Dprompt injection or body integrity failed, or three warnings
  • Fone of those failed, and something else is wrong

These are automated hygiene checks, not a security audit, and not a dependency or vulnerability scan. A grade of A means nothing was flagged — not that the artifact is safe.

Versions

  • git-f616d33f69b42026-07-31