getDivergence {dowser}

Get divergence from root of tree for each tip

Description

getDivergence get sum of branch lengths leading from the root of the tree. If the germline sequence is included in the tree, this will equal the germline divergence. If germline removed, this will equal the MRCA divergence

Usage

getDivergence(phy, minlength = 0.001)

Arguments

phy

Tree object

minlength

Branch lengths to collapse in trees

Value

A named vector of each tip's divergence from the tree's root.