TipTimedTree: Display time-calibrated tree using tip information only

In TreeTools: Create, Modify and Analyse Phylogenetic Trees

Display time-calibrated tree using tip information only

Description

TipTimedTree() plots a phylogenetic tree against time using an ad hoc approach based on dates associated with the leaves. Nodes are dated to the youngest possible value, plus an additional "buffer" (specified with minEdge) to ensure that branching order is readable.

Usage

TipTimedTree(tree, tipAge, minEdge = 1)

Arguments

tree	A tree of class phylo.
tipAge	Numeric vector specifying the age (in units-of-time ago) associated with each tip in tree$tip.label in turn. Older ages signify earlier tips.
minEdge	Minimum length of edge to allow (in units-of-time)

Details

This experimental function is liable to change its behaviour, or to be deprecated, in coming releases. Please contact the maintainer if you find it useful, so that a production-ready version can be prioritized.

Value

TipTimedTree() returns a tree with edge lengths set based on the ages of each tip.

See Also

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

Examples

tree <- BalancedTree(6)
plot(TipTimedTree(tree, tipAge = 1:6, minEdge = 2))

TreeTools documentation built on Sept. 11, 2024, 8:27 p.m.