Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis

Mass spectrometry data visualization

A library for deisotoping and charge state deconvolution of complex mass spectra

Top down / bottom up, MS/MS analysis tool for DDA and DIA mass spectrometry data

Python package for processing direct-infusion mass spectrometry-based metabolomics and lipidomics data

A declarative API for writing XML documents for HUPO PSI-MS mzML and mzIdentML

MS File ToolBox - tools for parsing some mass-spectrometry related file formats (mzML, mzXML, pep.xml, prot.xml, etc.)

Create .mzML files through the R Console

A tool for mass spectrometry data analysis.

Import/Export routines for MALDIquant

Recalibrate Mass Spectrometry data in mzML format

Read popular mass spectrometry formats

Java imzML (mass spectrometry imaging) and mzML (mass spectrometry) parser

A light weight and fast parser for reading mzML, mzXML and netCDF data files

Converts a Thermo .raw file with FAIMS scans into a series of .mzML files, creating one .mzML file for each FAIMS compensation voltage (CV) value.

C# reader/writer for mzIdentML files (.mzID). Also supports reading mzML files.

Raw data and peaks list simulation for GC/LC-MS based data

Convert between common MS data formats.

Convert Mass Spectrometry Files using msconvert, singularity and SLURM