betapart (version 1.6)

betapart.core: Core calculations of betapart

Description

Computes the basic quantities needed for computing the multiple-site beta diversity measures and pairwise dissimilarity matrices.

Usage

betapart.core(x)

Value

The function returns an object of class betapart with the following elements:

sumSi

the sum of the species richness values of all sites

St

the total richness in the dataset

a

the multiple-site analog of the shared species term

shared

a matrix containing the number of species shared between pairs of sites

not.shared

a matrix containing the number of species not shared between pairs of sites: b, c

sum.not.shared

a matrix containing the total number of species not shared between pairs of sites: b+c

max.not.shared

a matrix containing the total maximum number of species not shared between pairs of sites: max(b,c)

min.not.shared

a matrix containing the total minimum number of species not shared between pairs of sites: min(b,c)

Arguments

x

data frame, where rows are sites and columns are species

Author

Andrés Baselga and David Orme

References

Baselga, A. 2010. Partitioning the turnover and nestedness components of beta diversity. Global Ecology and Biogeography 19:134-143

Baselga, A. 2012. The relationship between species replacement, dissimilarity derived from nestedness, and nestedness. Global Ecology and Biogeography 21, 1223-1232

See Also

beta.multi, beta.pair, beta.sample, beta.temp,

Examples

data(ceram.s)
ceram.core.s<-betapart.core(ceram.s)
ceram.dist.jac<-beta.pair(ceram.core.s, index.family="jac")
ceram.dist.sor<-beta.pair(ceram.core.s, index.family="sor")
ceram.multi.jac<-beta.multi(ceram.core.s, index.family="jac")
ceram.multi.sor<-beta.multi(ceram.core.s, index.family="sor")