Process LC-MS/MS proteomics and metabolomics data through a Python interface to OpenMS.
npx skills add https://github.com/Sologa/codex-pipeline --skill pyopenms-sologa
Please help me install this Agent Skill. Skill: pyopenms Source: https://github.com/Sologa/codex-pipeline/tree/main/.codex/skills/pyopenms Command: npx skills add https://github.com/Sologa/codex-pipeline --skill pyopenms-sologa
This Skill simplifies complex mass spectrometry data analysis, enabling researchers to efficiently process proteomics and metabolomics data without deep programming knowledge.
Use the pyopenms skill to load the mzML file 'sample.mzML' and print the number of spectra.
High-intent search queries and answers about installing and using this skill.
Proteomics data analysis involves loading mzML files, applying signal processing like smoothing and filtering, detecting features, and identifying peptides to quantify protein abundance across different samples.
Quantifying protein abundance across mass spectrometry samples is done by loading the LC-MS/MS data, identifying the peptides, and then running quantitative analysis algorithms to compare their abundance across the different samples.
Yes, you can use Python for metabolomics signal processing and feature detection by accessing the OpenMS library interface, which enables smoothing, filtering, and feature detection directly within your data analysis workflow.
Yes, this approach supports reading standard mass spectrometry file formats like mzXML and mzML, allowing you to handle file I/O and load raw LC-MS/MS data for subsequent computational analysis.
To start analyzing an mzML file without deep programming knowledge, use the conversational interface to load the file, print the number of spectra, and run guided identification and quantification algorithms.
OwnLabAIAnalyze LC-MS data with Python bindings for OpenMS.
zongtingweiIdentify and quantify proteins from MS data with quality control and differential analysis.
Lord1EgyptProcess MaxQuant and DIA-NN outputs to identify and quantify protein expression changes.
tassiovaleCompare mass spectra and identify compounds using spectral libraries.
