MakeTreeBinary: Generate binary tree by collapsing polytomies

In TreeTools: Create, Modify and Analyse Phylogenetic Trees

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.

Author(s)

Martin R. Smith ([e-mail])

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(), KeptPaths(), KeptVerts(), LeafLabelInterchange(), Renumber(), RenumberTips(), RenumberTree(), RootTree(), SortTree(), Subtree(), TipTimedTree(), TrivialTree

Examples

MakeTreeBinary(CollapseNode(PectinateTree(7), c(9, 11, 13)))
UnrootTree(MakeTreeBinary(StarTree(5)))

TreeTools documentation built on Aug. 8, 2025, 7:18 p.m.