Computational Omics and Systems Biology Group
The CompOmics group, headed by Prof. Dr. Lennart Martens, specializes in the management, analysis and integration of high-throughput Omics data.
Pinned Repositories
compomics-utilities
Open source Java library for computational proteomics
DeepLC
DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
meta-proteome-analyzer
MetaProteomeAnalyzer (MPA) software for analyzing and visualizing MS-based metaproteomics data.
moFF
A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
ms2pip
MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
ms2rescore
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
peptide-shaker
Interpretation of proteomics identification results
psm_utils
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
searchgui
Highly adaptable common interface for proteomics search and de novo engines
ThermoRawFileParser
Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono
Computational Omics and Systems Biology Group's Repositories
compomics/ThermoRawFileParser
Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono
compomics/DeepLC
DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
compomics/peptide-shaker
Interpretation of proteomics identification results
compomics/ms2rescore
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
compomics/searchgui
Highly adaptable common interface for proteomics search and de novo engines
compomics/ms2pip
MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
compomics/compomics-utilities
Open source Java library for computational proteomics
compomics/psm_utils
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
compomics/ThermoRawFileParserGUI
Graphical user interface for the ThermoRawFileParser
compomics/denovogui
Graphical user interface for de novo sequencing of tandem mass spectra
compomics/COSS
COSS: CompOmics Spectral Searching
compomics/jsparklines
Sparklines for java tables
compomics/CALLC
compomics/cellmissy
Cell Migration Invasion Storage System.
compomics/lesSDRF
compomics/colims
A lims system to automate and expedite proteomics data management, processing and analysis.
compomics/fragmentation-analyzer
A standalone java tool for analyzing ms/ms fragmentation data.
compomics/IM2Deep
Collisional cross-section prediction for modified peptides
compomics/reporter
Protein quantification based on reporter ions
compomics/moff-gui
A graphical user interface for the Modest Feature Finding algorithm (moFF)
compomics/ms2rescore-rs
Rust functionality for the MS²Rescore package
compomics/mitraq
Multiple iTRAQ/TMT Data Analysis
compomics/tabloidProteome
compomics/Tissue_prediction_manuscript
compomics/bioconda-recipes
Conda recipes for the bioconda channel.
compomics/compomics.github.io
Compomics github website.
compomics/molexpress
Graph Neural Networks with Keras 3
compomics/ms2rescore-immunopeptidomics-manuscript
compomics/pepshell
Visualization of conformational proteomics data.
compomics/workshop-BioscienceSnapshot