chainsaw {rdiversity}

Function to cut the phylogeny to a specified depth from the tip with the greatest distance from the root.

Description

Function to cut the phylogeny to a specified depth from the tip with the greatest distance from the root.

Usage

chainsaw(partition, ps, depth)

Arguments

partition

two-dimensional matrix of mode numeric with rows as types (species), columns as subcommunities, and each element containing the relative abundance of types in each subcommunity relative to the metacommunity as a whole. In the phylogenetic case, this corresponds to the proportional abundance of historical species, which is calculated from the proportional abundance of terminal taxa

ps

phy_struct() output

depth

proportion of total tree height to be conserved (taken as a proportion from the highest tip). Describes how far back we go in the tree, with 0 marking the date of the most recent tip, and 1 marking the most recent common ancestor. Numbers greater than 1 extend the root of the tree

Value

chainsaw() returns an object of class metacommunity