R Observatory: Metrics for EcoDiet version 2.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

EcoDiet

2.0.1

Estimating a Diet Matrix from Biotracer and Stomach Content Data

0packages depend

2.9Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Pierre-Yves HernvannFirst published 2020-03-054 releasesCRAN page ↗GitHub ↗

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.

Install

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

install.packages("EcoDiet", 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("pyhernvann/EcoDiet")

Development version from pyhernvann/EcoDiet. 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-ecodiet

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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-EcoDiet

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-EcoDiet

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 4.4 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 390 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 50%
Documented parameters: 100%
Return-value docs: 57%
References docs: 0%

Downloads

2.9K

CRAN downloads in the past year

Rank #14,556 · ~8/day · ~238/mo

Releases R versions

Daily download trend is not available in this view yet.

19330 days

70890 days

2.9K1 year

Compare downloads with other packages →

Also on123 r2u5 autocran

Repository

GitHub ↗ pyhernvann/ecodiet

5Stars

3Forks

0Open issues

2Open PRs

1Releases

385Commits

8Contributors

385 commits · Last activity 2024-07-10 · 0% stars, 30d

Stars over time

2023-08-08 · 32026-07-07 · 5

Repository practices

Upstream repositoryBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/pyhernvann/ecodiet on 2026-08-16.

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5

Imports (6)

ggplot2 codastatsutils (>= 3.6)jagsUI ggmcmc

LinkingTo (0)

none

Suggests (4)

knitr rmarkdown devtools testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (7)

Maintainer (1)

Pierre-Yves Hernvann

Maintainer, Author

Authors (7)

Maintainer, Author

Author

Author

Author

Author

Author

Author

Package Timeline

4 releases. Pick two to compare their code metrics. R releases are shown for context.

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
2.0.1Latest
2024-03-25 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
2.0.0
2023-01-07 · diff ↗
1.0.1
2022-10-06 · diff ↗
unarchivedReturned to CRAN
2022-10-06
archivedRemoved from CRAN
2022-10-03
check issues were not corrected despite reminders
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.0.0
2020-03-05
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2020-03-05
Total releases: 4 / 6 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5
Bundled data: 220 KB / 1 file
Download size: 1.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("EcoDiet")

Format

Hernvann, P., Gascuel, D., Guitton, J., Kopp, D., Rivot, E., Robert, M., & Thero, H. (2024). EcoDiet: Estimating a Diet Matrix from Biotracer and Stomach Content Data (Version 2.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.EcoDiet

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 EcoDiet version 2.0.1 [Data set]. HJJB, LLC. Data release v2026-08-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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