cxr

1.1.1

A Toolbox for Modelling Species Coexistence in R

0packages depend

2.8Kdownloads / year

56.9%test coverage

13/13checks pass

Overview

About

Maintained by David Garcia-CallejasFirst published 2021-04-162 releasesCRAN page ↗GitHub ↗

Recent developments in modern coexistence theory have advanced our understanding on how species are able to persist and co-occur with other species at varying abundances. However, applying this mathematical framework to empirical data is still challenging, precluding a larger adoption of the theoretical tools developed by empiricists. This package provides a complete toolbox for modelling interaction effects between species, and calculate fitness and niche differences. The functions are flexible, may accept covariates, and different fitting algorithms can be used. A full description of the underlying methods is available in García-Callejas, D., Godoy, O., and Bartomeus, I. (2020) doi:10.1111/2041-210X.13443. Furthermore, the package provides a series of functions to calculate dynamics for stage-structured populations across sites.

Install

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

install.packages("cxr", 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("RadicalCommEcol/cxr")

Development version from RadicalCommEcol/cxr. 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-cxr

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

# 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-cxr

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

Health

CRAN checks

13OK

Slowest check: 4.5 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.10

56.9%

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 · 534 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 90%
Documented parameters: 99%
Return-value docs: 100%
References docs: 0%

Downloads

2.8K

CRAN downloads in the past year

Rank #14,987 · ~8/day · ~232/mo

Releases R versions

Daily download trend is not available in this view yet.

25330 days

72390 days

2.8K1 year

Compare downloads with other packages →

Also on122 r2u31 autocran

Repository

GitHub ↗ radicalcommecol/cxr

10Stars

1Forks

3Open issues

0Open PRs

4Releases

421Commits

7Contributors

421 commits · Last activity 2025-02-05

Stars over time

2022-12-12 · 102026-07-07 · 10

Repository practices

Upstream repositoryBeta

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

Checks run against github.com/radicalcommecol/cxr on 2026-07-19.

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 (1)

R >= 3.5

Imports (4)

Matrixmvtnorm optimxstats

LinkingTo (0)

none

Suggests (15)

BB DEoptimR dfoptim dplyr GenSA ggplot2 knitr magrittr minqa nloptr rmarkdown stringr testthat (>= 0.8.0)tidyr ucminf

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

David Garcia-Callejas

Author, Maintainer

Authors (3)

David Garcia-Callejas

Author, Maintainer

Ignasi Bartomeus

Author

Oscar Godoy

Author

Contributors (2)

Maxime Lancelot

Contributor

Maria Paniw

Contributor · added in 1.1.1

Package Timeline

2 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
1.1.1Latest
2023-10-26 · current release · 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
1.0.0
2021-04-16
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-04-16
Total releases: 2 / 5 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5
Bundled data: 43 KB / 7 files
Download size: 1.6 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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