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

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

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

AutoRT: Peptide retention time prediction using deep learning

Python module for lipidomics LC MS/MS data analysis

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

A python package for protein inference in Mass Spectrometric data analysis.

Code, Data and Results of the publication: "Probabilistic Framework for Integration of Tandem-Mass Spectrum and Retention Time Information in Small Molecule Identification" by Bach et al. 2020

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.

High-throughput MS/MS annotation with a in-house database

BMDMS-NP

tools collection of Sipros for stable isotopic mass spectrum meta proteomic research

Generate annotated Peptide Spectrum Matches (PSMs) from proteomic database search result

Extracts the features of peptide spectral library for better understanding and its efficient usage in DIA database search

LC-MS/MS derived peptide retention time deviation calculator across replicates for DDA and DIA derived result files.

Predict and match digested peptides sequences, their mass m/z and MS/MS spectra with chemical derivatization or post-translational modification.

MFQL files for Natural Products Dereplication

R package for annotation of glycans in MS1 and MS2 data

Predicting ion-mobility and spectra for labeled peptides

PCIIS data on DBS sample for volume detection