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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

    MATLAB 176 65

  2. yeast-GEM yeast-GEM Public

    The consensus GEM for Saccharomyces cerevisiae

    MATLAB 135 51

  3. RAVEN RAVEN Public

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

    MATLAB 131 62

  4. GECKO GECKO Public

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

    MATLAB 94 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 204 68

Repositories

Showing 10 of 114 repositories
  • Human-GEM Public

    The generic genome-scale metabolic model of Homo sapiens

    SysBioChalmers/Human-GEM's past year of commit activity
    MATLAB 176 CC-BY-4.0 65 82 11 Updated Sep 24, 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 16 0 Updated Sep 24, 2026
  • geckopy Public

    GECKO Toolbox for Python

    SysBioChalmers/geckopy's past year of commit activity
    Python 1 1 0 0 Updated Sep 23, 2026
  • raven-toolbox Public

    Python port of the RAVEN Toolbox, built on cobrapy

    SysBioChalmers/raven-toolbox's past year of commit activity
    Python 7 GPL-3.0 1 0 1 Updated Sep 23, 2026
  • overflow Public

    Supplementary code and results from doi:10.1101/2020.02.20.957662

    SysBioChalmers/overflow's past year of commit activity
    MATLAB 1 0 0 7 Updated Sep 20, 2026
  • GECKO Public

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

    SysBioChalmers/GECKO's past year of commit activity
    MATLAB 94 MIT 55 16 4 Updated Sep 20, 2026
  • RAVEN Public

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

    SysBioChalmers/RAVEN's past year of commit activity
    MATLAB 131 62 9 (1 issue needs help) 1 Updated Sep 11, 2026
  • papla-GEM Public

    Genome-scale metabolic model of Papiliotrema laurentii

    SysBioChalmers/papla-GEM's past year of commit activity
    MATLAB 0 CC-BY-4.0 0 1 1 Updated Sep 8, 2026
  • yeast-GEM Public

    The consensus GEM for Saccharomyces cerevisiae

    SysBioChalmers/yeast-GEM's past year of commit activity
    MATLAB 135 CC-BY-4.0 51 23 (5 issues need help) 0 Updated Sep 6, 2026
  • haecon-GEM Public

    Genome-scale model of Haemonchus contortus

    SysBioChalmers/haecon-GEM's past year of commit activity
    Jupyter Notebook 0 CC-BY-4.0 0 0 0 Updated Aug 31, 2026
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