make_local_phylo_dist: Make Local Scale Phylogenetic Distance Matrix

In levisc8/Fun_Phylo_Package: Helpers to Power the Fun Phylo Shiny App

Description

Function for creating a phylogenetic distance matrix from data that does not require you to subset first.

Usage

make_local_phylo_dist(focal.species, community.data, phylo,
  square_root = TRUE)

Arguments

focal.species	The focal species or plot identifier that you want to use to create a the phylogeny
community.data	The community data file. Each observation of a species in a community should be its own row. For now, the column specifiy which community is which is called exotic_species, but this will be generalized later using an argument to specifiy which column marks community separators and which column holds the actual species names
phylo	A larger phylogeny that contains all of the species in the community.data file.
square_root	Square root transform branch lengths in distance matrix?

Value

A phylogenetic distance matrix in the form of a data.frame

Author(s)

Sam Levin

levisc8/Fun_Phylo_Package documentation built on June 2, 2020, 8:41 a.m.