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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 Public

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

    C# 205 50

  2. DeepLC Public

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

    Python 62 21

  3. ms2rescore Public

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

    Python 56 18

  4. compomics-utilities Public

    Open source Java library for computational proteomics

    Java 32 17

  5. peptide-shaker Public

    Interpretation of proteomics identification results

    Java 48 18

  6. searchgui Public

    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

    Jupyter Notebook 0 Apache-2.0 0 0 0 Updated Mar 28, 2025
  • psm_utils Public

    Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python

    Python 27 Apache-2.0 9 6 (2 issues need help) 2 Updated Mar 28, 2025
  • DeepLC Public

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

    Python 62 Apache-2.0 21 0 0 Updated Mar 27, 2025
  • Peptonizer2000 Public

    Confidence for taxonomic analysis in metaproteomics. Get ready to peptonize!

    Python 1 Apache-2.0 0 3 0 Updated Mar 26, 2025
  • ms2rescore Public

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

    Python 56 Apache-2.0 18 13 3 Updated Mar 24, 2025
  • ThermoRawFileParser Public

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

    C# 205 Apache-2.0 50 13 1 Updated Mar 20, 2025
  • compomics.github.io Public

    Compomics github website.

    SCSS 0 MIT 1 0 0 Updated Mar 19, 2025
  • lesSDRF Public
    Jupyter Notebook 6 Apache-2.0 8 3 2 Updated Mar 18, 2025
  • searchgui Public

    Highly adaptable common interface for proteomics search and de novo engines

    Java 43 15 15 (11 issues need help) 0 Updated Mar 18, 2025
  • ms2pip Public

    MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.

    HTML 42 Apache-2.0 18 5 2 Updated Mar 12, 2025
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