PD_defict

Phylogenetic tree in newick format, can be an object from <code><a rd-options="" href="/link/FishPhyloMaker?package=FishPhyloMaker&version=0.2.0" data-mini-rdoc="FishPhyloMaker::FishPhyloMaker">FishPhyloMaker</a></code> function

phylo

A data frame containing the classification informing the level of insertions. This can be obtained
from <code><a rd-options="" href="/link/FishPhyloMaker?package=FishPhyloMaker&version=0.2.0" data-mini-rdoc="FishPhyloMaker::FishPhyloMaker">FishPhyloMaker</a></code> function

data

Character indicating which level must be considered in the calculation of PD deficit.
default is "Congeneric_insertion"

level

Title Calculate the amount of phylogenetic deficit in assemblages

Provides an alternative to facilitate the construction of a phylogeny for fish species from a list of species
or a community matrix using as a backbone the phylogenetic tree proposed by Rabosky et al. (2018) <doi:10.1038/s41586-018-0273-1>.

Gabriel Nakamura

FishPhyloMaker

Phylogenies for a List of Finned-Ray Fishes

Aline Richter

Bruno Soares

PD_defict function

Phylogenetic tree in newick format, can be an object from <code><a rd-options='' href='FishPhyloMaker'>FishPhyloMaker</a></code> function

A data frame containing the classification informing the level of insertions. This can be obtained
from <code><a rd-options='' href='FishPhyloMaker'>FishPhyloMaker</a></code> function

PD_defict: Title Calculate the amount of phylogenetic deficit in assemblages

Description

Usage

Arguments

Value

See Also