ses.comdistnt: Standardized effect size of inter-community MNTD (betaMNTD,...

Description Usage Arguments Details Value

View source: R/ses.comdistnt.R

Description

Standardized effect size of MNTD (mean nearest taxon distance) separating taxa in two communities, a measure of phylogenetic beta diversity

Usage

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ses.comdistnt(samp, dis, null.model = c("taxa.labels", "richness",
  "frequency", "sample.pool", "phylogeny.pool", "independentswap", "trialswap"),
  abundance.weighted = FALSE, exclude.conspecifics = FALSE, runs = 999,
  iterations = 1000, cores = 1)

Arguments

samp

Community data matrix with samples as rows

dis

Distance matrix (generally a phylogenetic distance matrix)

null.model

Null model to use (see Details section for description)

abundance.weighted

Should mean nearest taxon distances for each species be weighted by species abundance? (default = FALSE)

exclude.conspecifics

Should conspecific taxa in different communities be exclude from MNTD calculations? (default = FALSE)

runs

Number of randomizations

iterations

Number of iterations to use for each randomization (for independent swap and trial null models)

cores

Number of cores to use for parallel computing

Details

Currently implemented null models (arguments to null.model):

Value

A list of results:


Russel88/MicEco documentation built on Oct. 24, 2018, 3:07 p.m.