dot-NonDuplicateRoot: Non-duplicate root

In TreeSearch: Phylogenetic Analysis with Discrete Character Data

Non-duplicate root

Description

Identify, for each edge, whether it denotes a different partition from the root edge. The first edge of the input tree must be a root edge; this can be accomplished using Preorder().

Usage

.NonDuplicateRoot(parent, child, nEdge = length(parent))

Arguments

parent	Integer vector corresponding to the first column of the edge matrix of a tree of class phylo, i.e. tree$edge[, 1].
child	Integer vector corresponding to the second column of the edge matrix of a tree of class phylo, i.e. tree$edge[, 2].
nEdge	(optional) integer specifying the number of edges of a tree of class phylo, i.e. dim(tree$edge)[1]

Details

This function is a copy of a deprecated ancestor in TreeTools; see #32.

Value

.NonDuplicateRoot() returns a logical vector of length nEdge, specifying TRUE unless an edge identifies the same partition as the root edge.

Author(s)

Martin R. Smith ([e-mail])

Examples

tree <- TreeTools::Preorder(TreeTools::BalancedTree(8))
edge <- tree$edge
parent <- edge[, 1]
child <- edge[, 2]

which(!.NonDuplicateRoot(parent, child))

TreeSearch documentation built on Aug. 26, 2023, 9:06 a.m.