gillespie-algorithm 开源项目推荐（76 个）

SciML /Catalyst.jl

化学反应网络与系统生物学接口，用于科学机器学习（SciML）。高性能、GPU并行化和开源软件中的O（1）求解器。

SciML /MomentClosure.jl

Tools to generate and study moment equations for any chemical reaction network using various moment closure approximations

SciML /SBMLToolkit.jl

SBML differential equation and chemical reaction model (Gillespie simulations) for Julia's SciML ModelingToolkit

darrenjw /smfsb

Documentation, models and code relating to the 3rd edition of the textbook Stochastic Modelling for Systems Biology

SciML /ReactionNetworkImporters.jl

Julia Catalyst.jl importers for various reaction network file formats like BioNetGen and stoichiometry matrices

SciML /FiniteStateProjection.jl

Finite State Projection algorithms for chemical reaction networks

wcota /dynSIS-networkx

Networkx implementation of the SIS epidemic model for large and heterogeneous networks

palmtree2013 /DelaySSAToolkit.jl

DelaySSAToolkit.jl：一个用于带延迟随机模拟的 Julia 工具

clauswilke /pinetree

🌲 a flexible gene expression simulator with codon-specific translation rates

ADicksonLab /OpenRXN

A free, open-source tool for modeling chemical reaction networks in Python

wcota /dynSIS

Implementation of SIS epidemic model for large and heterogeneous networks using Fortran.

adolgert /CompetingClocks.jl

Simplest simulation to use non-Exponential transitions

wangl-cc /EvolutionaryModelingTools.jl

Simulate evolutionary biology models with Gillespie algorithm.

twallema /pySODM

Simulating and Optimising Dynamical Models in Python 3

lewlin /Stochastic-multidimensional-LV

Stochastic implementation of a Lotka-Volterra competition model extended to multidimensional niche spaces (published in 10.1103/PhysRevE.91.052107)

wcota /dynSIS-py

Implementation of SIS epidemic model for large and heterogeneous networks

KeepFloyding /numericalMethodsMat

A Matlab library of numerical methods for solving differential equations stochastically and continuously .

locuoco /stochastic-chemical-kinetics

Stochastic chemical kinetics using Gillespie algorithm and chemical master equation, application to enzyme kinetics

SergioPachonDotor /ToyMaker

该项目在 GitHub 上没有填写描述

edbonneville /gillespie-shiny

Shiny app simulating stochastic epidemics with Gillespie's direct method.