Repositories list

• vcell

  Public
  Virtual Cell Framework

  simulationinstall4jvcell-clients+ 1

  simulationinstall4jvcell-clientsvcell-server

  Java

  •

  Other

  •3535 forks in virtualcell/vcell•140140 stars in virtualcell/vcell•303303 issues in virtualcell/vcell•3939 pull requests in virtualcell/vcell•Updated Oct 15, 2026Oct 15, 2026

• vcell-fvsolver

  Public
  VCell Finite Volume PDE solver

  C++

  •

  Other

  •11 fork in virtualcell/vcell-fvsolver•22 stars in virtualcell/vcell-fvsolver•11 issue in virtualcell/vcell-fvsolver•44 pull requests in virtualcell/vcell-fvsolver•Updated Oct 15, 2026Oct 15, 2026

• pyvcell

  Public
  Python

  •

  MIT License

  •00 forks in virtualcell/pyvcell•44 stars in virtualcell/pyvcell•66 issues in virtualcell/pyvcell•33 pull requests in virtualcell/pyvcell•Updated Oct 10, 2026Oct 10, 2026

• vcell-solvers

  Public
  Virtual Cell solvers

  virtual-cell-solvers

  virtual-cell-solvers

  C

  •

  MIT License

  •66 forks in virtualcell/vcell-solvers•77 stars in virtualcell/vcell-solvers•88 issues in virtualcell/vcell-solvers•11 pull request in virtualcell/vcell-solvers•Updated Oct 10, 2026Oct 10, 2026

• zenodo-maint

  Public
  Reusable Zenodo record maintenance for GitHub release archiving

  Python

  •00 forks in virtualcell/zenodo-maint•00 stars in virtualcell/zenodo-maint•44 issues in virtualcell/zenodo-maint•00 pull requests in virtualcell/zenodo-maint•Updated Oct 10, 2026Oct 10, 2026

• vcell-fenics

  Public
  A Reaction-Diffusion-Advection solver for Cell Biology based on FEniCS

  Python

  •

  MIT License

  •00 forks in virtualcell/vcell-fenics•00 stars in virtualcell/vcell-fenics•1010 issues in virtualcell/vcell-fenics•11 pull request in virtualcell/vcell-fenics•Updated Oct 8, 2026Oct 8, 2026

• libvcell

  Public
  Java

  •

  MIT License

  •00 forks in virtualcell/libvcell•11 star in virtualcell/libvcell•00 issues in virtualcell/libvcell•00 pull requests in virtualcell/libvcell•Updated Oct 8, 2026Oct 8, 2026

• vcell-chombo

  Public
  C++

  •

  MIT License

  •00 forks in virtualcell/vcell-chombo•00 stars in virtualcell/vcell-chombo•00 issues in virtualcell/vcell-chombo•00 pull requests in virtualcell/vcell-chombo•Updated Oct 4, 2026Oct 4, 2026

• Smoldyn

  Public
  Smoldyn is a particle-based biochemical simulator for modeling molecular diffusion, surface interactions, and chemical reactions

  C++

  •

  GNU General Public License v3.0

  •1515 forks in virtualcell/Smoldyn•00 stars in virtualcell/Smoldyn•00 issues in virtualcell/Smoldyn•00 pull requests in virtualcell/Smoldyn•Updated Oct 4, 2026Oct 4, 2026

• vcell-ode

  Public
  The ODE focused solvers VCell utilizes in it's main applications

  C

  •

  Other

  •00 forks in virtualcell/vcell-ode•11 star in virtualcell/vcell-ode•33 issues in virtualcell/vcell-ode•00 pull requests in virtualcell/vcell-ode•Updated Oct 1, 2026Oct 1, 2026

• vcell-mbsolver

  Public
  Moving boundary solver standalone, linkable library and python bindings.

  C

  •

  MIT License

  •00 forks in virtualcell/vcell-mbsolver•11 star in virtualcell/vcell-mbsolver•11 issue in virtualcell/vcell-mbsolver•00 pull requests in virtualcell/vcell-mbsolver•Updated Sep 30, 2026Sep 30, 2026

• vcell-nfsim

  Public
  NFsim library and standalone executable.

  C++

  •

  MIT License

  •00 forks in virtualcell/vcell-nfsim•00 stars in virtualcell/vcell-nfsim•00 issues in virtualcell/vcell-nfsim•00 pull requests in virtualcell/vcell-nfsim•Updated Sep 30, 2026Sep 30, 2026

• vcell-hy3s

  Public
  Standalone repo for vcell hy3s solver

  C

  •

  MIT License

  •00 forks in virtualcell/vcell-hy3s•00 stars in virtualcell/vcell-hy3s•00 issues in virtualcell/vcell-hy3s•00 pull requests in virtualcell/vcell-hy3s•Updated Sep 30, 2026Sep 30, 2026

• vcell-stochastic

  Public
  Library and standalone binary for Stochastic solver.

  C++

  •

  MIT License

  •00 forks in virtualcell/vcell-stochastic•00 stars in virtualcell/vcell-stochastic•00 issues in virtualcell/vcell-stochastic•00 pull requests in virtualcell/vcell-stochastic•Updated Sep 30, 2026Sep 30, 2026

• VCell-AI

  Public
  An AI-powered platform for discovering, analyzing, and exploring biomodels from the VCell database. Built as part of Google Summer of Code (GSoC25), this projec…

  pythondockertypescript+ 9

  pythondockertypescriptnextjsauth0biomodelsfastapivcellqdrantllms+ 2

  TypeScript

  •

  MIT License

  •1414 forks in virtualcell/VCell-AI•1414 stars in virtualcell/VCell-AI•2424 issues in virtualcell/VCell-AI•2020 pull requests in virtualcell/VCell-AI•Updated Sep 28, 2026Sep 28, 2026

• CompCellBio

  Public
  HTML

  •11 fork in virtualcell/CompCellBio•00 stars in virtualcell/CompCellBio•00 issues in virtualcell/CompCellBio•00 pull requests in virtualcell/CompCellBio•Updated Sep 14, 2026Sep 14, 2026

• vcell-expressionparser

  Public
  Virtual Cell Expression Parser submodule

  C++

  •

  MIT License

  •00 forks in virtualcell/vcell-expressionparser•00 stars in virtualcell/vcell-expressionparser•00 issues in virtualcell/vcell-expressionparser•00 pull requests in virtualcell/vcell-expressionparser•Updated Aug 21, 2026Aug 21, 2026

• vcell-jhdf

  Public
  Temporary fork of jamesmudd/jhdf carrying incremental + streaming chunk writing (upstream: jhdf#654 / PR jhdf#865). VCell pins tag 0.13.0-VCELL-1. See VCELL-FOR…

  Java

  •

  MIT License

  •4848 forks in virtualcell/vcell-jhdf•00 stars in virtualcell/vcell-jhdf•00 issues in virtualcell/vcell-jhdf•00 pull requests in virtualcell/vcell-jhdf•Updated Aug 20, 2026Aug 20, 2026

• vcell-jsbml

  Public
  JSBML Fork For VCell

  Java

  •

  GNU Lesser General Public License v2.1

  •2727 forks in virtualcell/vcell-jsbml•00 stars in virtualcell/vcell-jsbml•00 issues in virtualcell/vcell-jsbml•00 pull requests in virtualcell/vcell-jsbml•Updated Aug 17, 2026Aug 17, 2026

• vcell-vtk-wasm

  Public
  Custom VTK-compiled-to-WebAssembly bundle for VCell's browser field viewer (built from VTK source + marshalling-coverage patches)

  Shell

  •00 forks in virtualcell/vcell-vtk-wasm•00 stars in virtualcell/vcell-vtk-wasm•00 issues in virtualcell/vcell-vtk-wasm•00 pull requests in virtualcell/vcell-vtk-wasm•Updated Aug 8, 2026Aug 8, 2026

• vcell-messaging

  Public
  Repository for VCellMessaging submodule.

  C++

  •

  MIT License

  •00 forks in virtualcell/vcell-messaging•00 stars in virtualcell/vcell-messaging•00 issues in virtualcell/vcell-messaging•00 pull requests in virtualcell/vcell-messaging•Updated Jul 31, 2026Jul 31, 2026

• modelbricks-webapp

  Public
  webapp for exploring public models

  Handlebars

  •99 forks in virtualcell/modelbricks-webapp•11 star in virtualcell/modelbricks-webapp•00 issues in virtualcell/modelbricks-webapp•44 pull requests in virtualcell/modelbricks-webapp•Updated Oct 16, 2025Oct 16, 2025

• openapi-generator

  Public
  OpenAPI Generator allows generation of API client libraries (SDK generation), server stubs, documentation and configuration automatically given an OpenAPI Spec …

  Java

  •

  Apache License 2.0

  •7.7k7.7k forks in virtualcell/openapi-generator•00 stars in virtualcell/openapi-generator•00 issues in virtualcell/openapi-generator•00 pull requests in virtualcell/openapi-generator•Updated May 20, 2025May 20, 2025

• vcell-fiji

  Public
  A tool that loads VCell simulation results into ImageJ and performs statistical analysis.

  Java

  •

  MIT License

  •11 fork in virtualcell/vcell-fiji•22 stars in virtualcell/vcell-fiji•88 issues in virtualcell/vcell-fiji•00 pull requests in virtualcell/vcell-fiji•Updated Apr 23, 2025Apr 23, 2025

• vcdb

  Public
  Shell

  •

  MIT License

  •00 forks in virtualcell/vcdb•33 stars in virtualcell/vcdb•1212 issues in virtualcell/vcdb•00 pull requests in virtualcell/vcdb•Updated Jan 30, 2025Jan 30, 2025

• vcell-api-client

  Public
  Python client for VCell REST API

  Python

  •

  MIT License

  •00 forks in virtualcell/vcell-api-client•00 stars in virtualcell/vcell-api-client•00 issues in virtualcell/vcell-api-client•00 pull requests in virtualcell/vcell-api-client•Updated May 30, 2024May 30, 2024

• vcell-bioformats

  Public archive
  implementation of ImageDatasetService thrift interface (optionally used by VCell if separately installed)

  Java

  •00 forks in virtualcell/vcell-bioformats•22 stars in virtualcell/vcell-bioformats•00 issues in virtualcell/vcell-bioformats•00 pull requests in virtualcell/vcell-bioformats•Updated May 6, 2024May 6, 2024

• usermaterials

  Public
  MIT License

  •00 forks in virtualcell/usermaterials•00 stars in virtualcell/usermaterials•33 issues in virtualcell/usermaterials•00 pull requests in virtualcell/usermaterials•Updated Sep 13, 2022Sep 13, 2022

• vcellMichael

  Public archive
  Virtual Cell Framework

  Java

  •

  Other

  •3535 forks in virtualcell/vcellMichael•00 stars in virtualcell/vcellMichael•00 issues in virtualcell/vcellMichael•00 pull requests in virtualcell/vcellMichael•Updated Jul 18, 2022Jul 18, 2022

• vcell_cli_utils

  Public
  Python

  •

  MIT License

  •11 fork in virtualcell/vcell_cli_utils•00 stars in virtualcell/vcell_cli_utils•00 issues in virtualcell/vcell_cli_utils•00 pull requests in virtualcell/vcell_cli_utils•Updated Jun 24, 2021Jun 24, 2021