LC-MS data processing tool for large-scale metabolomics experiments.

Data toolkits for processing NMR, MALDI MSI, MALDI single cell, Raman Spectroscopy, LC-MS and GC-MS raw data, chemoinformatics data analysis and data visualization.

Fast and Accurate CE-, GC- and LC-MS(/MS) Data Processing

Mass spectrometry data visualization

The MetaRbolomics book. A review of R packages in BioC, CRAN, gitlab and github.

Workflow for LC-MS feature analysis and spatial mapping

BEAMSpy - Birmingham mEtabolite Annotation for Mass Spectrometry (Python Package)

R-package - Automated Evaluation of Precursor Ion Purity for Mass Spectrometry Based Fragmentation in Metabolomics

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

Package for analyzing MS with Python

Workflow4Metabolomics meta repository

A tool for mass spectrometry data analysis.

R/Bioconductor package - STRUCT (STatistics in R Using Class Templates) Toolbox

R/Bioconductor Package - Interface to the Metabolomics Workbench RESTful API

QC systems for metabolomics studies

Collaborative workflow for untargeted metabolomics data processing and analysis using open-source tools. https://doi.org/10.3390/metabo13040463

A mass spectrometry package for Julia

LipidHunter is capable to perform bottom up identification of lipids from LC-MS/MS and shotgun lipidomics data by resembling a workflow of manual spectra annotation. LipidHunter generates interactive HTML output with its unique six-panel-image, which provides an easy way to review, store, and share the identification results.

PepFoot: a user friendly GUI for protein footprinting analysis

Deep Denoising Autoencoder-assisted Continuous Scoring of Peak Quality in High-Resolution LC−MS Data