codyn

Community Dynamics Metrics

Univariate and multivariate temporal and spatial diversity indices, rank abundance curves, and community stability metrics. The functions implement metrics 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 metrics. 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.

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Description file content

Package
codyn
Title
Community Dynamics Metrics
Version
2.0.0
Date
2018-06-11
Description
Univariate and multivariate temporal and spatial diversity indices, rank abundance curves, and community stability metrics. The functions implement metrics 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 metrics. 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.
Depends
R (>= 3.2.0)
Imports
assertthat, stats, permute, vegan
Suggests
testthat, knitr, ggplot2, reshape2, devtools, dplyr, rmarkdown
License
Apache License (== 2.0)
URL
BugReports
https://github.com/NCEAS/codyn/issues
LazyData
true
VignetteBuilder
knitr
RoxygenNote
6.0.1
NeedsCompilation
no
Packaged
2018-06-12 05:01:45 UTC; jones
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
Repository
CRAN
Date/Publication
2018-06-12 05:29:23 UTC

install.packages('codyn')

2.0.0

8 days ago

https://github.com/NCEAS/codyn/

Matthew B. Jones

Apache License (== 2.0)

Depends on

R (>= 3.2.0)

Imports

assertthat, stats, permute, vegan

Suggests

testthat, knitr, ggplot2, reshape2, devtools, dplyr, rmarkdown

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