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PhylogeneticEM (version 1.0.0)

compute_times_ca: Comon Ancestors Times

Description

compute_times_ca computes the times t_ij between the root and the comon ancestor of two tips i, j.

Usage

compute_times_ca(phy)

Arguments

phy
a phylogenetic tree of class phylo.

Value

a matrix of times of shared evolutions, ordered as the tips of the tree. The matrix is of type symmetricMatrix-class.

Details

Tis function relies on ape functions node.depth.edgelength and mrca.