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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 125 56

  2. yeast-GEM yeast-GEM Public

    The consensus GEM for Saccharomyces cerevisiae

    MATLAB 115 52

  3. RAVEN RAVEN Public

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

    MATLAB 120 57

  4. GECKO GECKO Public

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

    MATLAB 79 51

  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 179 63

Repositories

Showing 10 of 106 repositories
  • Human-GEM Public

    The generic genome-scale metabolic model of Homo sapiens

    SysBioChalmers/Human-GEM’s past year of commit activity
    MATLAB 125 CC-BY-4.0 56 93 13 Updated Jan 3, 2026
  • sce-crabtree-neg-study Public

    To see the results:

    SysBioChalmers/sce-crabtree-neg-study’s past year of commit activity
    MATLAB 0 MIT 0 0 0 Updated Dec 17, 2025
  • RAVEN Public

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

    SysBioChalmers/RAVEN’s past year of commit activity
    MATLAB 120 57 11 (1 issue needs help) 1 Updated Dec 11, 2025
  • sysbio.se Public

    The sysbio.se source code

    SysBioChalmers/sysbio.se’s past year of commit activity
    CSS 0 MIT 2 1 0 Updated Dec 9, 2025
  • OrthoBenchmark Public Forked from V-Varga/OrthoBenchmark

    A Python- and R-based toolbox for benchmarking orthologous clustering programs

    SysBioChalmers/OrthoBenchmark’s past year of commit activity
    Python 0 MIT 1 0 0 Updated Dec 8, 2025
  • yeast-GEM Public

    The consensus GEM for Saccharomyces cerevisiae

    SysBioChalmers/yeast-GEM’s past year of commit activity
    MATLAB 115 CC-BY-4.0 52 31 (6 issues need help) 1 Updated Nov 27, 2025
  • GECKO Public

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

    SysBioChalmers/GECKO’s past year of commit activity
    MATLAB 79 MIT 51 13 2 Updated Nov 19, 2025
  • Ecoli-GEM Public

    Genome-scale metabolic model for Escherichia coli

    SysBioChalmers/Ecoli-GEM’s past year of commit activity
    HTML 1 CC-BY-4.0 1 3 1 Updated Oct 30, 2025
  • 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 0 Updated Sep 16, 2025
  • ecFactory Public

    A constraint-based method for prediction of metabolic engineering targets using ecModels of metabolism

    SysBioChalmers/ecFactory’s past year of commit activity
    MATLAB 10 GPL-3.0 5 2 1 Updated Feb 12, 2025
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