TreeTools (version 1.6.0)

MakeTreeBinary: Generate binary tree by collapsing polytomies

Description

MakeTreeBinary() resolves, at random, all polytomies in a tree or set of trees, such that all trees compatible with the input topology are drawn with equal probability.

Usage

MakeTreeBinary(tree)

Arguments

tree

A tree of class phylo.

Value

MakeTreeBinary() returns a rooted binary tree of class phylo, corresponding to tree uniformly selected from all those compatible with the input tree topologies.

See Also

Since ape v5.5, this functionality is available through ape::multi2di(); previous versions of 'ape' did not return topologies in equal frequencies.

Other tree manipulation: AddTip(), CollapseNode(), ConsensusWithout(), DropTip(), EnforceOutgroup(), ImposeConstraint(), LeafLabelInterchange(), RenumberTips(), RenumberTree(), Renumber(), RootTree(), SingleTaxonTree(), SortTree(), Subtree()

Examples

# NOT RUN {
MakeTreeBinary(CollapseNode(PectinateTree(7), c(9, 11, 13)))
UnrootTree(MakeTreeBinary(StarTree(5)))
# }