> ## Documentation Index
> Fetch the complete documentation index at: https://kalarislabs.com/llms.txt
> Use this file to discover all available pages before exploring further.

# pyopenms — AI agent skill for life sciences

> Complete mass spectrometry analysis platform.

# `pyopenms`

> Complete mass spectrometry analysis platform. Use for proteomics and metabolomics workflows—feature detection, peptide/protein identification, label-free and isobaric quantification, adduct/accurate-mass annotation, and complex LC-MS/MS pipelines. Supports extensive file formats and algorithms. For simple spectral comparison and small-molecule library matching use matchms.

**Category:** [life-sciences](/skills#life-sciences) · **License:** 3 clause BSD license · **Version:** 2.1

## Install

```bash theme={null}
npx research-agent-skills install pyopenms
npx skills add KalarisLabs/research-agent-skills --skill pyopenms
```

## When to use it

Complete mass spectrometry analysis platform. Use for proteomics and metabolomics workflows—feature detection, peptide/protein identification, label-free and isobaric quantification, adduct/accurate-mass annotation, and complex LC-MS/MS pipelines. Supports extensive file formats and algorithms. For simple spectral comparison and small-molecule library matching use matchms.

## Full playbook

Read [SKILL.md](https://github.com/KalarisLabs/research-agent-skills/blob/main/skills/pyopenms/SKILL.md) for the complete workflow, references and any scripts. The agent installer copies the full skill folder.