clusters_from_shifts: Clustering associated to a shift allocation, assuming no...

clusters_from_shiftsR Documentation

Clustering associated to a shift allocation, assuming no homoplasy.

Description

clusters_from_shifts take a vector of shifts edges, and gives the clustering of the tips induced by them, in a "no homoplasy" model (i.e. no convergence is allowed).

Usage

clusters_from_shifts(tree, edges, part.list = enumerate_tips_under_edges(tree))

Arguments

tree

phylogenetic tree

edges

a vector of edges of the tree, where the shifts are

part.list

a list giving the descendant tips of each edge

Details

By default, this function uses enumerate_tips_under_edges to compute the list of tips under each edge.

Value

list of size n+m-1, entry i is the vector of tips bellow edge i.


pbastide/PhylogeneticEM documentation built on Feb. 12, 2024, 1:27 a.m.