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@vivarium-collective

Vivarium Collective

home of the vivarium project ecosystem

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  1. vivarium-core vivarium-core Public

    Core Interface and Engine for Vivarium 1.0

    Python 33 3

  2. vivarium-interface vivarium-interface Public

    Vivarium 2.0 Interface to Process-Bigraphs

    Jupyter Notebook 1

  3. process-bigraph process-bigraph Public

    process and composite simulation interfaces

    Python 3 4

  4. bigraph-schema bigraph-schema Public

    compositional type schemas

    Python 2 4

  5. bigraph-viz bigraph-viz Public

    visualization tool for bigraph schema

    Jupyter Notebook 1 2

  6. process-template process-template Public template

    A starting point for vivarium projects

    Python

Repositories

Showing 10 of 68 repositories
  • vivarium-tyssue Public

    Vivarium Implementation of a Tyssue Euler Methods

    vivarium-collective/vivarium-tyssue’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 28, 2025
  • sms-api Public

    SMS API - Design, run, and analyze simulations of dynamic cellular processes in Escherichia coli.

    vivarium-collective/sms-api’s past year of commit activity
    Python 1 0 1 4 Updated Oct 28, 2025
  • pymunk-process Public
    vivarium-collective/pymunk-process’s past year of commit activity
    Python 0 0 0 0 Updated Oct 28, 2025
  • vivarium-collective.github.io Public
    vivarium-collective/vivarium-collective.github.io’s past year of commit activity
    HTML 0 0 1 0 Updated Oct 28, 2025
  • spatio-flux Public

    spatio-temporal fba for process-bigraphs

    vivarium-collective/spatio-flux’s past year of commit activity
    Python 1 2 1 1 Updated Oct 26, 2025
  • bigraph-schema Public

    compositional type schemas

    vivarium-collective/bigraph-schema’s past year of commit activity
    Python 2 Apache-2.0 4 44 2 Updated Oct 25, 2025
  • vEcoli Public Forked from CovertLab/vEcoli

    Whole cell model of E. coli implemented with process-bigraph (in development)

    vivarium-collective/vEcoli’s past year of commit activity
    Jupyter Notebook 1 MIT 14 0 2 Updated Oct 24, 2025
  • CRM Public

    Consumer Resource Models

    vivarium-collective/CRM’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 24, 2025
  • python-process Public

    A python socket server process implementation

    vivarium-collective/python-process’s past year of commit activity
    Python 0 0 0 0 Updated Oct 23, 2025
  • spatial-transport Public
    vivarium-collective/spatial-transport’s past year of commit activity
    Jupyter Notebook 0 0 0 0 Updated Oct 21, 2025
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