Packages all inputs into an object of class similarity.
phy2branch(tree, partition, depth = 1)object of class phylo.
two-dimensional matrix of mode numeric
with rows as types (terminal taxa), columns as subcommunities, and each
element containing the relative abundance of types in each subcommunity
relative to the metacommunity as a whole.
proportion of total tree height to be conserved (taken as a proportion from the highest tip). Describes how much evolutionary history should be retained, with 0 marking the date of the most recent tip, and 1 (the default) marking the most recent common ancestor. Numbers greater than 1 extend the root of the tree.
phy2branch() returns an object of class similarity.