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GillespieSSA

swMATH ID: 21016
Software Authors: Mario Pineda-Krch
Description: R package GillespieSSA: Gillespie’s Stochastic Simulation Algorithm (SSA). GillespieSSA provides a simple to use, intuitive, and extensible interface to several stochastic simulation algorithms for generating simulated trajectories of finite population continuous-time model. Currently it implements Gillespie’s exact stochastic simulation algorithm (Direct method) and several approximate methods (Explicit tau-leap, Binomial tau-leap, and Optimized tau-leap). The package also contains a library of template models that can be run as demo models and can easily be customized and extended. Currently the following models are included, decaying-dimerization reaction set, linear chain system, logistic growth model, Lotka predator-prey model, Rosenzweig-MacArthur predator-prey model, Kermack-McKendrick SIR model, and a metapopulation SIRS model.
Homepage: https://cran.r-project.org/web/packages/GillespieSSA/index.html
Dependencies: R
Related Software: R; deSolve; Julia; Gillespie.jl; COPASI; BioNetGen; simecol; Python; igraph; EpiContactTrace; reshape; InterSpread Plus; Epigrass; ggplot2; foreach; doParallel; hybridModels; JuMP; libSBML; DifferentialEquations.jl
Referenced in: 4 Publications

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