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.

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ThermoRawFileParserThermoRawFileParserPublic
Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono
C# 205 50
DeepLCDeepLCPublic
DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
Python 62 21
ms2rescorems2rescorePublic
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
Python 56 18
compomics-utilitiescompomics-utilitiesPublic
Open source Java library for computational proteomics
Java 32 17
peptide-shakerpeptide-shakerPublic
Interpretation of proteomics identification results
Java 48 18
searchguisearchguiPublic
Highly adaptable common interface for proteomics search and de novo engines
Java 43 15

Repositories

Showing 10 of 98 repositories

Workshop_Grenoble_2025 Public
Workshop_Grenoble_2025
compomics/Workshop_Grenoble_2025’s past year of commit activity
Jupyter Notebook0Apache-2.00 0 0 UpdatedMar 28, 2025
psm_utils Public
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
compomics/psm_utils’s past year of commit activity
Python 27Apache-2.0 9 6 (2 issues need help) 2 UpdatedMar 28, 2025
DeepLC Public
DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
compomics/DeepLC’s past year of commit activity
Python 62Apache-2.0 21 0 0 UpdatedMar 27, 2025
Peptonizer2000 Public
Confidence for taxonomic analysis in metaproteomics. Get ready to peptonize!
compomics/Peptonizer2000’s past year of commit activity
Python 1Apache-2.00 3 0 UpdatedMar 26, 2025
ms2rescore Public
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
compomics/ms2rescore’s past year of commit activity
Python 56Apache-2.0 18 13 3 UpdatedMar 24, 2025
ThermoRawFileParser Public
Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono
compomics/ThermoRawFileParser’s past year of commit activity
C# 205Apache-2.0 50 13 1 UpdatedMar 20, 2025
compomics.github.io Public
Compomics github website.
compomics/compomics.github.io’s past year of commit activity
SCSS0MIT 1 0 0 UpdatedMar 19, 2025
lesSDRF Public
compomics/lesSDRF’s past year of commit activity
Jupyter Notebook 6Apache-2.0 8 3 2 UpdatedMar 18, 2025
searchgui Public
Highly adaptable common interface for proteomics search and de novo engines
compomics/searchgui’s past year of commit activity
Java 43 15 15 (11 issues need help) 0 UpdatedMar 18, 2025
ms2pip Public
MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
compomics/ms2pip’s past year of commit activity
HTML 42Apache-2.0 18 5 2 UpdatedMar 12, 2025