Package: EcoDiet 2.0.1

Pierre-Yves Hernvann

EcoDiet: Estimating a Diet Matrix from Biotracer and Stomach Content Data

Biotracers and stomach content analyses are combined in a Bayesian hierarchical model to estimate a probabilistic topology matrix (all trophic link probabilities) and a diet matrix (all diet proportions). The package relies on the JAGS software and the 'jagsUI' package to run a Markov chain Monte Carlo approximation of the different variables.

Authors:Pierre-Yves Hernvann [cre, aut], Didier Gascuel [aut], Dorothee Kopp [aut], Marianne Robert [aut], Jerome Guitton [aut], Etienne Rivot [aut], Heloise Thero [aut]

EcoDiet_2.0.1.tar.gz
EcoDiet_2.0.1.tar.gz(r-4.5-noble)EcoDiet_2.0.1.tar.gz(r-4.4-noble)
EcoDiet_2.0.1.tgz(r-4.4-emscripten)EcoDiet_2.0.1.tgz(r-4.3-emscripten)
EcoDiet.pdf |EcoDiet.html
EcoDiet/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/pyhernvann/ecodiet/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3
Datasets:

3.26 score 12 scripts 234 downloads 7 exports 50 dependencies

Last updated 9 months agofrom:ccbbaba659. Checks:OK: 2. Indexed: no.

TargetResultDate
Doc / VignettesOKNov 21 2024
R-4.5-linuxOKNov 21 2024

Exports:diagnose_modelplot_dataplot_priorplot_resultspreprocess_datarun_modelwrite_model

Dependencies:clicodacolorspacecpp11crayondplyrfansifarverforcatsgenericsGGallyggmcmcggplot2ggstatsgluegtablehmsisobandjagsUIlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepatchworkpillarpkgconfigplyrprettyunitsprogresspurrrR6RColorBrewerRcpprjagsrlangscalesstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithr

Introduction - How to use EcoDiet

Rendered fromintroduction_EcoDiet.Rmdusingknitr::rmarkdownon Nov 21 2024.

Last update: 2024-03-26
Started: 2020-03-05

EcoDiet explored on a realistic example

Rendered fromrealistic_example.Rmdusingknitr::rmarkdownon Nov 21 2024.

Last update: 2024-03-26
Started: 2020-03-05

How to deal with convergence problems

Rendered fromconvergence_problems.Rmdusingknitr::rmarkdownon Nov 21 2024.

Last update: 2023-01-06
Started: 2020-03-05