GillespieSSA: Gillespie's Stochastic Simulation Algorithm (SSA)

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. Pineda-Krch et al. (2008) <doi:10.18637/jss.v025.i12>.

Version: 0.6.0
Depends: R (≥ 2.0.0)
Imports: grDevices, graphics, stats, utils
Suggests: knitr, rmarkdown, testthat
Published: 2019-07-14
Author: Mario Pineda-Krch [aut], Robrecht Cannoodt ORCID iD [aut, cre]
Maintainer: Robrecht Cannoodt <rcannood at gmail.com>
License: GPL (≥ 3)
URL: https://www.github.com/rcannood/GillespieSSA
NeedsCompilation: no
Materials: README NEWS
In views: DifferentialEquations
CRAN checks: GillespieSSA results

Downloads:

Reference manual: GillespieSSA.pdf
Vignettes: Decaying-Dimerization Reaction Set (Gillespie, 2001)
SIRS metapopulation model (Pineda-Krch, 2008)
Linear Chain System (Cao et al., 2004)
Pearl-Verhulst Logistic growth model (Kot, 2001)
Lotka predator-prey model (Gillespie, 1977; Kot, 2001)
Radioactive decay model (Gillespie, 1977)
Rosenzweig-MacArthur predator-prey model (Pineda-Krch et al., 2007)
Kermack-McKendrick SIR model (Brown & Rothery, 1993)
Package source: GillespieSSA_0.6.0.tar.gz
Windows binaries: r-devel: GillespieSSA_0.6.0.zip, r-release: GillespieSSA_0.6.0.zip, r-oldrel: GillespieSSA_0.6.0.zip
OS X binaries: r-release: GillespieSSA_0.6.0.tgz, r-oldrel: GillespieSSA_0.6.0.tgz
Old sources: GillespieSSA archive

Reverse dependencies:

Reverse imports: hybridModels

Linking:

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