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@SysBioChalmers

Systems and Synthetic Biology at Chalmers University of Technology

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  1. Human-GEM Human-GEM Public

    The generic genome-scale metabolic model of Homo sapiens

    Python 174 65

  2. yeast-GEM yeast-GEM Public

    The consensus GEM for Saccharomyces cerevisiae

    MATLAB 137 51

  3. RAVEN RAVEN Public

    The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

    MATLAB 132 62

  4. GECKO GECKO Public

    Toolbox for including enzyme constraints on a genome-scale model.

    MATLAB 95 55

  5. DLKcat DLKcat Public

    Deep learning and Bayesian approach applied to enzyme turnover number for the improvement of enzyme-constrained genome-scale metabolic models (ecGEMs) reconstruction

    Python 206 68

Repositories

Showing 10 of 116 repositories
  • geckopy Public

    GECKO Toolbox for Python

    SysBioChalmers/geckopy's past year of commit activity
    Python 2 1 0 2 Updated Oct 15, 2026
  • GECKO Public

    Toolbox for including enzyme constraints on a genome-scale model.

    SysBioChalmers/GECKO's past year of commit activity
    MATLAB 95 MIT 55 16 4 Updated Oct 15, 2026
  • RAVEN Public

    The RAVEN Toolbox for genome scale model reconstruction, curation and analysis.

    SysBioChalmers/RAVEN's past year of commit activity
    MATLAB 132 62 9 (1 issue needs help) 4 Updated Oct 14, 2026
  • overflow Public

    Supplementary code and results from doi:10.1101/2020.02.20.957662

    SysBioChalmers/overflow's past year of commit activity
    Python 1 0 0 1 Updated Oct 14, 2026
  • Human-GEM Public

    The generic genome-scale metabolic model of Homo sapiens

    SysBioChalmers/Human-GEM's past year of commit activity
    Python 174 CC-BY-4.0 65 32 3 Updated Oct 14, 2026
  • raven-toolbox Public

    Python port of the RAVEN Toolbox, built on cobrapy

    SysBioChalmers/raven-toolbox's past year of commit activity
    Python 8 GPL-3.0 1 1 1 Updated Oct 14, 2026
  • sysbio.se Public

    The sysbio.se source code

    SysBioChalmers/sysbio.se's past year of commit activity
    CSS 0 MIT 2 1 0 Updated Oct 13, 2026
  • Yeast-maps Public

    Metabolic maps for the Yeast-8.3 GEM

    SysBioChalmers/Yeast-maps's past year of commit activity
    R 1 GPL-3.0 0 0 1 Updated Oct 9, 2026
  • Human-maps Public

    Human1 metabolic maps

    SysBioChalmers/Human-maps's past year of commit activity
    2 CC-BY-4.0 2 0 1 Updated Oct 9, 2026
  • raven-gecko-parity Public

    Keeps the MATLAB and Python implementations of RAVEN and GECKO honest about their differences: parity ledgers plus cross-implementation behaviour scenarios.

    SysBioChalmers/raven-gecko-parity's past year of commit activity
    Python 0 MIT 0 19 3 Updated Oct 8, 2026
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