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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 51

  3. RAVEN RAVEN Public

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

    MATLAB 121 58

  4. GECKO GECKO Public

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

    MATLAB 80 50

  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 183 63

Repositories

Showing 10 of 107 repositories
  • 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 4 1 Updated Feb 4, 2026
  • 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 95 13 Updated Feb 4, 2026
  • DiversifyCodons Public

    R Shiny App for diversification of codons. We strive to create diverse DNA strings that translate to the same protein sequence.

    SysBioChalmers/DiversifyCodons’s past year of commit activity
    R 0 MIT 0 0 0 Updated Jan 27, 2026
  • GECKO Public

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

    SysBioChalmers/GECKO’s past year of commit activity
    MATLAB 80 MIT 50 14 2 Updated Jan 27, 2026
  • RAVEN Public

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

    SysBioChalmers/RAVEN’s past year of commit activity
    MATLAB 121 58 12 (1 issue needs help) 0 Updated Jan 15, 2026
  • sint-GEM Public

    Genome-scale metabolic model of Sungouiella intermedia

    SysBioChalmers/sint-GEM’s past year of commit activity
    MATLAB 0 GPL-3.0 1 7 0 Updated Jan 15, 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
  • 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 51 30 (6 issues need help) 1 Updated Nov 27, 2025
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