Package: simmr 0.5.2

Andrew Parnell

simmr: A Stable Isotope Mixing Model

Fits Stable Isotope Mixing Models (SIMMs) and is meant as a longer term replacement to the previous widely-used package SIAR. SIMMs are used to infer dietary proportions of organisms consuming various food sources from observations on the stable isotope values taken from the organisms' tissue samples. However SIMMs can also be used in other scenarios, such as in sediment mixing or the composition of fatty acids. The main functions are simmr_load() and simmr_mcmc(). The two vignettes contain a quick start and a full listing of all the features. The methods used are detailed in the papers Parnell et al 2010 <doi:10.1371/journal.pone.0009672>, and Parnell et al 2013 <doi:10.1002/env.2221>.

Authors:Emma Govan [aut], Andrew Parnell [cre, aut]

simmr_0.5.2.tar.gz
simmr_0.5.2.tar.gz(r-4.7-arm64)simmr_0.5.2.tar.gz(r-4.7-x86_64)simmr_0.5.2.tar.gz(r-4.6-arm64)simmr_0.5.2.tar.gz(r-4.6-x86_64)
simmr_0.5.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
simmr/json (API)
NEWS

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

Bug tracker:https://github.com/andrewcparnell/simmr/issues

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

Uses libs:
  • openblas– Optimized BLAS
  • c++– GNU Standard C++ Library v3
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
Datasets:
  • geese_data - Geese stable isotope mixing data set
  • geese_data_day1 - A smaller version of the Geese stable isotope mixing data set
  • simmr_data_1 - A simple fake stable isotope mixing data set
  • simmr_data_2 - A 3-isotope fake stable isotope mixing data set
  • square_data - An artificial data set used to indicate effect of priors

On CRAN:

Conda:

openblascppjags

4.86 score 3 stars 81 scripts 917 downloads 12 mentions 9 exports 65 dependencies

Last updated from:e52df8dafb. Checks:6 OK. Indexed: no.

TargetResultTimeFilesSyslog
linux-devel-arm64OK216
linux-devel-x86_64OK256
source / vignettesOK332
linux-release-arm64OK262
linux-release-x86_64OK256
wasm-releaseOK152

Exports:combine_sourcescompare_groupscompare_sourcesposterior_predictiveprior_vizsimmr_elicitsimmr_ffvbsimmr_loadsimmr_mcmc

Dependencies:abindbackportsbayesmbayesplotbootcheckmateclicodacompositionscpp11crayonDEoptimRdistributionaldplyrfarverforcatsgenericsGGallyggplot2ggridgesggstatsgluegridExtragtablehmsisobandlabelinglatticelifecyclemagrittrMASSmatrixStatsnumDerivpatchworkpillarpkgconfigplyrposteriorprettyunitsprogresspurrrR2jagsR2WinBUGSR6RColorBrewerRcppRcppArmadilloRcppDistreshape2rjagsrlangrobustbaseS7scalesstringistringrtensorAtibbletidyrtidyselectutf8vctrsviridisviridisLitewithr

simmr: advanced plotting guide

Andrew Parnell

Rendered fromadvanced_plotting.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2023-10-13
Started: 2023-03-25

simmr: quick start guide

Andrew Parnell

Rendered fromquick_start.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2023-10-02
Started: 2019-06-14

Stable Isotope Mixing Models in R with simmr

Andrew Parnell and Richard Inger

Rendered fromsimmr.Rmdusingknitr::rmarkdownon Jun 15 2026.

Last update: 2026-05-11
Started: 2015-08-06