mntd: Mean nearest taxon distance

In picante: R tools for integrating phylogenies and ecology

Description

Calculates MNTD (mean nearest taxon distance) for taxa in a community

Usage

mntd(samp, dis, abundance.weighted=FALSE)

Arguments

samp	Community data matrix
dis	Interspecific distance matrix
abundance.weighted	Should mean nearest taxon distances for each species be weighted by species abundance? (default = FALSE)

Details

This metric has also been referred to as MNND (mean nearest neighbour distance), and the function was named mnnd in picante versions < 0.7.

Value

Vector of MNTD values for each community.

Author(s)

Steven Kembel <[e-mail]>

References

Webb, C., D. Ackerly, M. McPeek, and M. Donoghue. 2002. Phylogenies and community ecology. Annual Review of Ecology and Systematics 33:475-505.

See Also

ses.mntd

Examples

data(phylocom)
mntd(phylocom$sample, cophenetic(phylocom$phylo), abundance.weighted=TRUE)

Example output

Loading required package: ape
Loading required package: vegan
Loading required package: permute
Loading required package: lattice
This is vegan 2.4-4
Loading required package: nlme
[1] 2.000 2.000 2.000 2.000 6.000 4.875

picante documentation built on May 2, 2019, 6:30 p.m.