codyn: Community Dynamics Metrics
Univariate and multivariate temporal and spatial diversity indices, rank abundance curves, and community stability measures. The functions implement measures that are either explicitly temporal and include the option to calculate them over multiple replicates, or spatial and include the option to calculate them over multiple time points. Functions fall into five categories: static diversity indices, temporal diversity indices, spatial diversity indices, rank abundance curves, and community stability measures. The diversity indices are temporal and spatial analogs to traditional diversity indices. Specifically, the package includes functions to calculate community richness, evenness and diversity at a given point in space and time. In addition, it contains functions to calculate species turnover, mean rank shifts, and lags in community similarity between two time points. Details of the methods are available in Hallett et al. (2016) <doi:10.1111/2041-210X.12569> and Avolio et al. (2019) <doi:10.1002/ecs2.2881>.
| Version: | 2.0.5 |
| Depends: | R (≥ 3.2.0) |
| Imports: | assertthat, stats,permute,vegan |
| Suggests: | testthat,knitr,ggplot2,pillar,reshape2,devtools,dplyr,rmarkdown |
| Published: | 2020-12-01 |
| DOI: | 10.32614/CRAN.package.codyn |
| Author: | Lauren Hallett [aut], Meghan L. Avolio [aut], Ian T. Carroll [aut], Sydney K. Jones [aut], A. Andrew M. MacDonald [aut], Dan F. B. Flynn [aut], Peter Slaughter [aut], Julie Ripplinger [aut], Scott L. Collins [aut], Corinna Gries [aut], Matthew B. Jones [aut, cre] |
| Maintainer: | Matthew B. Jones <jones at nceas.ucsb.edu> |
| BugReports: | https://github.com/NCEAS/codyn/issues |
| License: | Apache License (== 2.0) |
| URL: | https://github.com/NCEAS/codyn/ |
| NeedsCompilation: | no |
| Citation: | codyn citation info |
| Materials: | README,NEWS |
| CRAN checks: | codyn results |
Documentation:
| Reference manual: | codyn.html ,codyn.pdf |
| Vignettes: | Community stability metrics (source,R code) Temporal diversity indices (source,R code) codyn: Community Dynamic Metrics (source) |
Downloads:
| Package source: | codyn_2.0.5.tar.gz |
| Windows binaries: | r-devel:codyn_2.0.5.zip, r-release:codyn_2.0.5.zip, r-oldrel:codyn_2.0.5.zip |
| macOS binaries: | r-release (arm64):codyn_2.0.5.tgz, r-oldrel (arm64):codyn_2.0.5.tgz, r-release (x86_64):codyn_2.0.5.tgz, r-oldrel (x86_64):codyn_2.0.5.tgz |
| Old sources: | codyn archive |
Linking:
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