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@CompOmics

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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  1. ThermoRawFileParser ThermoRawFileParser Public

    Thermo RAW file parser that runs on Linux/Mac and all other platforms that support Mono

    C# 216 52

  2. DeepLC DeepLC Public

    DeepLC: Retention time prediction for (modified) peptides using Deep Learning.

    Python 67 22

  3. ms2rescore ms2rescore Public

    Modular and user-friendly platform for AI-assisted rescoring of peptide identifications

    Python 59 19

  4. compomics-utilities compomics-utilities Public

    Open source Java library for computational proteomics

    Java 33 17

  5. peptide-shaker peptide-shaker Public

    Interpretation of proteomics identification results

    Java 48 18

  6. searchgui searchgui Public

    Highly adaptable common interface for proteomics search and de novo engines

    Java 44 15

Repositories

Showing 10 of 98 repositories
  • iDeepLC Public

    iDeepLC: A deep Learning-based retention time predictor for unseen modified peptides with a novel encoding system

    CompOmics/iDeepLC’s past year of commit activity
    Python 0 Apache-2.0 0 0 0 Updated Jul 14, 2025
  • DeepLC Public

    DeepLC: Retention time prediction for (modified) peptides using Deep Learning.

    CompOmics/DeepLC’s past year of commit activity
    Python 67 Apache-2.0 22 0 1 Updated Jul 14, 2025
  • oui-discovery Public

    Collaboration between CompOmics & OpenProt group

    CompOmics/oui-discovery’s past year of commit activity
    Jupyter Notebook 0 Apache-2.0 0 0 0 Updated Jul 3, 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# 216 Apache-2.0 52 14 1 Updated Jun 19, 2025
  • EUPA_2025_DIA Public Forked from RobbinBouwmeester/ASMS_2024_DIA

    Analysis of limitations of DIA data analysis for EuPA 2025 presentation

    CompOmics/EUPA_2025_DIA’s past year of commit activity
    Jupyter Notebook 0 Apache-2.0 1 0 0 Updated Jun 16, 2025
  • lesSDRF Public
    CompOmics/lesSDRF’s past year of commit activity
    Jupyter Notebook 6 Apache-2.0 8 5 1 Updated Jun 12, 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 28 Apache-2.0 10 7 (2 issues need help) 5 Updated Jun 11, 2025
  • mumble Public

    Finding the perfect modification for your mass shift

    CompOmics/mumble’s past year of commit activity
    Python 5 Apache-2.0 1 1 3 Updated Jun 11, 2025
  • ms2rescore Public

    Modular and user-friendly platform for AI-assisted rescoring of peptide identifications

    CompOmics/ms2rescore’s past year of commit activity
    Python 59 Apache-2.0 19 17 3 Updated Jun 10, 2025
  • molcraft Public

    Deep Learning on Molecules.

    CompOmics/molcraft’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Jun 2, 2025
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