R Observatory: Metrics for GillespieSSA version 0.6.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GillespieSSA

0.6.2Package record

Gillespie's Stochastic Simulation Algorithm (SSA)

1packages dependsuggested by 1

6.4Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Robrecht CannoodtCRAN page ↗GitHub ↗

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.

Changes in 0.6.2

MINOR CHANGE: Allow using .t as parameter in the propensity functions.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("GillespieSSA", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("rcannood/GillespieSSA")

Development version from rcannood/GillespieSSA. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-gillespiessa

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-GillespieSSA

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-GillespieSSA

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 3.6 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.6.2

READMEYes · 640 wordsVignettesYes · 8 · dynamicNEWSYes · 100% structured · mentions 0.6.2Citation fileNoWebsitenot declared in DESCRIPTION

Description cites a JSS article

Help pages: 7includes a package overview page
Examples that run: 100%6 run in a plain check
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 17%
Help pages citing references: 71%

Vignettes (8)

How these are measured

Downloads

6.4K

CRAN downloads in the past year

Rank #6,626 · ~18/day · ~533/mo

Releases R versions

Daily download trend is not available in this view yet.

47230 days

1.3K90 days

6.4K1 year

Compare downloads with other packages →

Also on105 r2u3 autocran155 c2d4u

How downloads are counted

Repository

rcannood/gillespiessa ↗Account: rcannood

3Stars

0Forks

0Open issues

0Open PRs

0Releases

85Commits

3Commit identities

85 commits · Last activity 2022-03-10 · 0% stars, 30d

Responsiveness

not measured

Stars over time

2023-11-29 · 32026-07-07 · 3

How these are measured

PracticesBeta

6 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/rcannood/gillespiessa on 2026-10-18.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux

Docs source (1)

README.Rmd

CRAN release process (2)

cran-comments.mdrevdep/

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing GillespieSSA adds no packages beyond those that come with R.

Depends (1)

R >= 2.0.0

Imports (5)

grDevicesgraphicsmethodsstatsutils

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Suggested by 1

Depends, Imports or LinkingTo, most downloaded first

hybridModels

Suggests, most downloaded first

GillespieSSA2

How these are counted

Code & Tests

People & History

People (2)

Robrecht Cannoodt

Author, Maintainer · added in 0.6.0

Mario Pineda-Krch

Author

Maintainer since 0.2-0 (2007)

Releases (11)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
0.6.2Latest
record
2022-03-10 · current release · diff ↗
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
0.6.1
record
2019-07-26 · diff ↗
unarchivedReturned to CRAN
2019-07-15
0.6.0
record
2019-07-15 · diff ↗ ·
removed 1 export
pattern:^[^\\.]

added 6 exports
ssa, ssa.btl, ssa.d, ssa.etl, ssa.otl, ssa.plot
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16

Show 22 earlier eventsHide 22 earlier events

R
R 3.1.0 released · 2014-04-10
orphanedOrphaned by its maintainer
2014-01-12
maintainer address <mpineda@math.ualbeta.ca> bounced
R
R 3.0.0 released · 2013-04-03
R
R 2.15.0 released · 2012-03-30
0.5-4
record
2012-01-15 · diff ↗
R
R 2.14.0 released · 2011-10-31
R
R 2.13.0 released · 2011-04-13
R
R 2.12.0 released · 2010-10-15
R
R 2.11.0 released · 2010-04-22
R
R 2.10.0 released · 2009-10-26
R
R 2.9.0 released · 2009-04-17
R
R 2.8.0 released · 2008-10-20
R
R 2.7.0 released · 2008-04-22
0.5-3
record
2008-02-21 · diff ↗
0.5-2
record
2008-01-19 · diff ↗
0.5-1
record
2008-01-16 · diff ↗
0.5-0
record
2007-10-20 · diff ↗
0.4-0
record
2007-10-14 · diff ↗
0.3-1
record
2007-10-04 · diff ↗
R
R 2.6.0 released · 2007-10-03
0.2-0
record
2007-09-21
R
R 2.5.0 released · 2007-04-24

Package metadata

First published: 2007-09-21
Total releases: 11 / 19 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 2.0.0
Download size: 1.2 MB

Appears in task views

Differential Equations

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GillespieSSA")

Format

Cannoodt, R., & Pineda-Krch, M. (2022). GillespieSSA: Gillespie's Stochastic Simulation Algorithm (SSA) (Version 0.6.2) [Computer software]. https://doi.org/10.32614/CRAN.package.GillespieSSA

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for GillespieSSA version 0.6.2 [Data set]. HJJB, LLC. Data release v2026-10-20. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-20, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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