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 + fileLICENSE |
| URL: | https://github.com/RadicalCommEcol/cxr |
| NeedsCompilation: | no |
| Citation: | cxr citation info |
| Materials: | README,NEWS |
| CRAN checks: | cxr results |
Documentation:
| Reference manual: | cxr.html ,cxr.pdf |
| Vignettes: | Getting started (source,R code) Data and model formats (source,R code) coexistence metrics (source,R code) User-defined Models (source,R code) Abundance projections (source,R code) Metapopulation projections (source,R code) |
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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