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@SystemsBioinformatics

Systems Biology Lab, Vrije Universiteit Amsterdam

This is the code repository of the Systems Biology Lab. Our lab studies the molecular networks inside cells that give rise to cell behaviour and fitness.

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  1. stochpy stochpy Public

    StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks

    Python 44 11

  2. cbmpy cbmpy Public

    CBMPy is a Python based platform for constraint based modelling and analysis.

    Python 20 4

  3. ecmtool ecmtool Public

    Uncover organisms' metabolic blueprints

    Python 18 6

  4. parcr parcr Public

    Construct parser combinators in R

    HTML 6

  5. dynamic-community-fba dynamic-community-fba Public

    Dynamic Community FBA repository

    Python 4

  6. cbmpy-metadraft cbmpy-metadraft Public

    CBMPy Metadraft: a flexible and extensible genome-scale model reconstruction tool

    Python 2 1

Repositories

Showing 10 of 24 repositories
  • net_conversion_gui Public
    SystemsBioinformatics/net_conversion_gui's past year of commit activity
    Python 0 0 0 0 Updated Sep 4, 2026
  • EFM_example_scripts Public
    SystemsBioinformatics/EFM_example_scripts's past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Sep 4, 2026
  • DisentangleMetabolism Public
    SystemsBioinformatics/DisentangleMetabolism's past year of commit activity
    Python 0 0 0 0 Updated Jul 15, 2026
  • excelDataGuide Public

    Simplify reading data from Excel templates (R-package)

    SystemsBioinformatics/excelDataGuide's past year of commit activity
    R 0 0 2 0 Updated Jul 14, 2026
  • dynamic-community-fba Public

    Dynamic Community FBA repository

    SystemsBioinformatics/dynamic-community-fba's past year of commit activity
    Python 4 MIT 0 2 0 Updated May 27, 2026
  • cbmpy Public

    CBMPy is a Python based platform for constraint based modelling and analysis.

    SystemsBioinformatics/cbmpy's past year of commit activity
    Python 20 GPL-3.0 4 14 0 Updated May 26, 2026
  • dataSheetParcr Public
    SystemsBioinformatics/dataSheetParcr's past year of commit activity
    R 0 0 0 0 Updated Feb 17, 2026
  • parcr Public

    Construct parser combinators in R

    SystemsBioinformatics/parcr's past year of commit activity
    HTML 6 0 0 0 Updated Feb 17, 2026
  • stochpy Public

    StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks

    SystemsBioinformatics/stochpy's past year of commit activity
    Python 44 BSD-3-Clause 11 2 0 Updated Jun 20, 2025
  • cbmpy-metadraft Public

    CBMPy Metadraft: a flexible and extensible genome-scale model reconstruction tool

    SystemsBioinformatics/cbmpy-metadraft's past year of commit activity
    Python 2 GPL-3.0 1 5 0 Updated Mar 19, 2025
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