Package: GillespieSSA2 0.3.0

GillespieSSA2: Gillespie's Stochastic Simulation Algorithm for Impatient People

A fast, scalable, and versatile framework for simulating large systems with Gillespie's Stochastic Simulation Algorithm ('SSA'). This package is the spiritual successor to the 'GillespieSSA' package originally written by Mario Pineda-Krch. Benefits of this package include major speed improvements (>100x), easier to understand documentation, and many unit tests that try to ensure the package works as intended. Cannoodt and Saelens et al. (2021) <doi:10.1038/s41467-021-24152-2>.

Authors:Robrecht Cannoodt [aut, cre], Wouter Saelens [aut]

GillespieSSA2_0.3.0.tar.gz
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GillespieSSA2_0.3.0.tar.gz(r-4.7-arm64)GillespieSSA2_0.3.0.tar.gz(r-4.7-x86_64)GillespieSSA2_0.3.0.tar.gz(r-4.6-arm64)GillespieSSA2_0.3.0.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
GillespieSSA2/json (API)

# Install 'GillespieSSA2' in R:
install.packages('GillespieSSA2', repos = c('https://rcannood.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/rcannood/gillespiessa2/issues

Pkgdown/docs site:https://rcannood.github.io

Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

Conda:

cpp

7.09 score 9 stars 1 packages 92 scripts 364 downloads 9 exports 40 dependencies

Last updated from:adb5454390. Checks:12 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK553
linux-devel-x86_64OK193
source / vignettesOK350
linux-release-arm64OK232
linux-release-x86_64OK227
macos-release-arm64OK181
macos-release-x86_64OK284
macos-oldrel-arm64OK145
macos-oldrel-x86_64OK307
windows-develOK197
windows-releaseOK180
windows-oldrelOK166
wasm-releaseFAIL128

Exports:compile_reactionsode_emplot_ssaport_reactionsreactionssassa_btlssa_etlssa_exact

Dependencies:assertthatbitbit64clicliprcpp11crayondescdplyrdynutilsgenericsgluehmslatticelifecyclemagrittrMatrixpillarpkgconfigprettyunitsprogressproxyCpurrrR6RcppRcppArmadilloRcppXPtrUtilsreadrremotesrlangstringistringrtibbletidyrtidyselecttzdbutf8vctrsvroomwithr

Decaying-Dimerization Reaction Set
References
Rendered fromdecaying_dimer.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-07-17

Kermack-McKendrick SIR model
References
Rendered fromsir.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Linear Chain System
References
Rendered fromlinear_chain.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Lotka Predator-Prey model
Rendered fromlotka_predator_prey.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Pearl-Verhulst Logistic Growth model
References
Rendered fromlogistic_growth.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Radioactive Decay model
References
Rendered fromradioactive_decay.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Rosenzweig-MacArthur Predator-Prey model
References
Rendered fromrm_predator_prey.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

SIRS metapopulation model
References
Rendered fromepi_chain.Rmdusingknitr::rmarkdown

Last update: 2023-01-23
Started: 2019-08-09

Converting from GillespieSSA to GillespieSSA2
Rendered fromconverting_from_GillespieSSA.Rmdusingknitr::rmarkdown

Last update: 2020-07-14
Started: 2019-08-09

Introduction to GillespieSSA2
Rendered froman_introduction.Rmdusingknitr::rmarkdown

Last update: 2020-07-14
Started: 2019-08-09