cxr: A Toolbox for Modelling Species Coexistence in R
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.
| Version: | 1.1.1 |
| Depends: | R (≥ 3.5) |
| Imports: | Matrix, mvtnorm, optimx, stats |
| Suggests: | BB, DEoptimR, dfoptim, dplyr, GenSA, ggplot2, knitr, magrittr, minqa, nloptr, rmarkdown, stringr, testthat (≥ 0.8.0), tidyr, ucminf |
| Published: | 2023-10-26 |
| DOI: | 10.32614/CRAN.package.cxr |
| Author: | David Garcia-Callejas
 [aut, cre],
Ignasi Bartomeus
[aut],
Oscar Godoy [aut],
Maxime Lancelot [ctb],
Maria Paniw [ctb] |
| Maintainer: | David Garcia-Callejas <david.garcia.callejas at gmail.com> |
| BugReports: | https://github.com/RadicalCommEcol/cxr/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/RadicalCommEcol/cxr |
| NeedsCompilation: | no |
| Citation: | cxr citation info |
| Materials: | README NEWS |
| CRAN checks: | cxr results |
Documentation:
| Reference manual: | cxr.pdf |
| Vignettes: |
Getting started Data and model formats coexistence metrics User-defined Models Abundance projections Metapopulation projections |
Downloads:
| Package source: | cxr_1.1.1.tar.gz |
| Windows binaries: | r-devel: cxr_1.1.1.zip, r-release: cxr_1.1.1.zip, r-oldrel: cxr_1.1.1.zip |
| macOS binaries: | r-release (arm64): cxr_1.1.1.tgz, r-oldrel (arm64): cxr_1.1.1.tgz, r-release (x86_64): cxr_1.1.1.tgz, r-oldrel (x86_64): cxr_1.1.1.tgz |
| Old sources: | cxr archive |
Linking:
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