isocat

1.0.1

Isotope Origin Clustering and Assignment Tools

0packages depend

3Kdownloads / year

72.8%test coverage

13/13checks pass

Overview

About

Maintained by Caitlin CampbellFirst published 2019-06-077 releasesCRAN page ↗GitHub ↗

This resource provides tools to create, compare, and post-process spatial isotope assignment models of animal origin. It generates probability-of-origin maps for individuals based on user-provided tissue and environment isotope values (e.g., as generated by IsoMAP, Bowen et al. [2013] doi:10.1111/2041-210X.12147) using the framework established in Bowen et al. (2010) doi:10.1146/annurev-earth-040809-152429). The package 'isocat' can then quantitatively compare and cluster these maps to group individuals by similar origin. It also includes techniques for applying four approaches (cumulative sum, odds ratio, quantile only, and quantile simulation) with which users can summarize geographic origins and probable distance traveled by individuals. Campbell et al. [2020] establishes several of the functions included in this package doi:10.1515/ami-2020-0004.

Install

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

install.packages("isocat", 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("cjcampbell/isocat")

Development version from cjcampbell/isocat. 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-isocat

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-isocat

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-isocat

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

Health

CRAN checks

13OK

Slowest check: 9.5 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.43

72.8%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 279 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 86%
Documented parameters: 94%
Return-value docs: 37%
References docs: 17%

Downloads

CRAN downloads in the past year

Rank #14,031 · ~8/day · ~251/mo

Releases R versions

Daily download trend is not available in this view yet.

32330 days

75590 days

3K1 year

Compare downloads with other packages →

Also on87 r2u34 autocran

Repository

GitHub ↗ cjcampbell/isocat

3Stars

3Forks

0Open issues

0Open PRs

6Releases

192Commits

1Contributors

192 commits · Last activity 2026-07-17

Releases over time

2026-07-10 · 42026-07-15 · 6

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/cjcampbell/isocat on 2026-07-26.

Continuous integration (1)

GitHub Actions

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Depends (3)

R >= 3.5utilsterra

Imports (5)

statsplyr magrittrmethodsforeach

LinkingTo (0)

none

Suggests (14)

dendextend doParallel dplyr ggplot2 gridExtra kableExtra knitrparallelpvclust rmarkdown raster rasterVis testthat viridisLite

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (1)

Maintainer (1)

Caitlin Campbell

Author, Maintainer

Authors (1)

Caitlin Campbell

Author, Maintainer

Package Timeline

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

1.0.1Latest
2026-07-12 · current release · diff ↗
1.0.0
2026-07-09 · diff ↗
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
0.3.0
2024-02-16 · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
0.2.6
2020-07-03 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.2.5
2020-03-28 · diff ↗
0.2.4
2019-12-11 · diff ↗
0.2.3
2019-06-07
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-06-07
Total releases: 7 / 7 yrs
License: CC0
Minimum R: ≥ 3.5
Bundled data: 605 KB / 4 files
Download size: 973 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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