pd {picante}R Documentation

Calculate Faith's Phylogenetic Diversity

Description

Calculate the sum of the total branch lengths for one or multiple samples.

Usage

pd(samp, tree)

Arguments

samp Community data matrix
tree A phylo tree object

Value

Returns a dataframe of the PD and species richness values for all samples

Note

This function does not calculate PD for samples with one or zero species. The data sets need not be species-community data sets but may be any sample data set with an associated phylogeny. PD is not statistically independent of species richness, it positively correlates with species richness across samples.

Author(s)

Matthew Helmus mrhelmus@gmail.com
Jonathan Davies davies@nceas.ucsb.edu

References

Faith D.P. (1992) Conservation evaluation and phylogenetic diversity. Biological Conservation, 61, 1-10

See Also

psr


[Package picante version 0.2-0 Index]