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>.
c(
person("Mario", "Pineda-Krch", role = c("aut")),
person(
"Robrecht", "Cannoodt",
email = "rcannood@gmail.com",
role = c("aut", "cre"),
comment = c(ORCID = "0000-0003-3641-729X")
)
)
Mario Pineda-Krch [aut],
Robrecht Cannoodt [aut, cre] (<https://orcid.org/0000-0003-3641-729X>)

grDevices, graphics, methods, stats, utils

Gillespie's Stochastic Simulation Algorithm for Impatient People
c(person(given = "Robrecht",
family = "Cannoodt",
role = c("aut", "cre"),
email = "rcannood@gmail.com",
comment = c(ORCID = "0000-0003-3641-729X")),
person(given = "Wouter",
family = "Saelens",
role = "aut",
email = "wouter.saelens@gmail.com",
comment = c(ORCID = "0000-0002-7114-6248")))
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. (2020)
<doi:10.1101/2020.02.06.936971>.
assertthat, dplyr, dynutils, Matrix, methods, purrr, Rcpp (>=
0.12.3), RcppXPtrUtils, readr, rlang, stringr, tidyr
covr, ggplot2, GillespieSSA, knitr, rmarkdown, testthat (>=
2.1.0)
Robrecht Cannoodt [aut, cre] (<https://orcid.org/0000-0003-3641-729X>),
Wouter Saelens [aut] (<https://orcid.org/0000-0002-7114-6248>)