phytools (version 0.3-72.1)

rotateNodes: Rotates a node or set of nodes in a phylogenetic tree

Description

This function is a wrapper for rotate which rotates a set of nodes or all nodes.

Usage

rotateNodes(tree, nodes, polytom=c(1,2), ...)

Arguments

tree

object of class "phylo".

nodes

either a single node number to rotate, a vector of node numbers, or the string "all".

polytom

a vector of mode numeric and length two specifying the two clades that should be exchanged in a polytomy (see rotate).

...

optional arguments.

Value

• An object of class "phylo" (i.e., a phylogenetic tree).

Details

Also addresses the problem that the product of multiple rotations from rotate can be non-compliant with the implicit "phylo" standard because the tip numbers in tree$edge are not in numerical order 1:n for n tips.