ssandrews / Smoldyn
Smoldyn is a particle-based biochemical simulator for modeling molecular diffusion, surface interactions, and chemical reactions
☆26Updated 2 months ago
Alternatives and similar repositories for Smoldyn:
Users that are interested in Smoldyn are comparing it to the libraries listed below
- Rule-based modeling framework☆60Updated 3 months ago
- Python / C++ based particle reaction-diffusion simulator☆56Updated 2 years ago
- GPU-accelerated multicellular modelling framework☆58Updated 9 months ago
- Modeling toolkit for biochemical simulation☆73Updated 3 months ago
- LibSBML is a native library for reading, writing and manipulating files and data streams containing the Systems Biology Markup Language (…☆46Updated last week
- COPASI is a software application for simulation and analysis of biochemical networks and their dynamics.☆99Updated this week
- Encoding Dynamic Flux Balance Analysis in SBML☆11Updated 4 years ago
- BioSCRAPE (Bio-circuit Stochastic Single-cell Reaction Analysis and Parameter Estimation)☆20Updated 6 months ago
- Simulation platform of animal embryogenesis☆20Updated 2 years ago
- StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks☆40Updated 2 years ago
- Virtual Cell Framework☆72Updated this week
- CompuCell3D public source code repository☆64Updated 2 weeks ago
- Python package for stochastic simulations☆16Updated this week
- A platform for sharing and reusing biomodeling studies including models, simulations, and visualizations of their results☆40Updated this week
- PhysiCell: Scientist end users should use latest release! Developers please fork the development branch and submit PRs to the dev branch.…☆148Updated last month
- An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuris…☆23Updated last year
- Official release of the NUFEB software☆18Updated last year
- Chaste - Cancer Heart And Soft Tissue Environment - main public repository.☆126Updated this week
- Modular cloning simulation with the MoClo framework in Python☆12Updated 2 years ago
- MCell Monte Carlo Simulator of Cellular Microphysiology☆34Updated 10 months ago
- NonEquilibrium Reaction-Diffusion Self-assembly Simulator☆14Updated this week
- Python Environment for Modeling and Simulating Biological Systems☆110Updated last month
- Advanced Multilanguage Interface to CVODES and IDAS☆112Updated last week
- Online material for the Perspective: "Julia for Biologists" presented at JuliaCon 2021: https://www.youtube.com/watch?v=gRj7E5kYG1I☆97Updated 2 years ago
- Whole-cell modeling tutorials☆16Updated 4 years ago
- A modular compiler for biological chemical reaction networks☆42Updated 4 months ago
- Utilities for Caltech course BE 150☆21Updated last year
- ☆32Updated 3 years ago
- A general-purpose, stochastic, biochemical reaction simulator for large reaction networks☆17Updated 7 months ago
- Repository for libCellML development.☆17Updated last month