removeTip: Remove a tip from a phylogenetic tree

In DomBennett/MoreTreeTools: Tools for manipulating phylogenetic trees

Description

Remove tips from a phylogenetic tree

Usage

removeTip(tree, tips, preserve.age)

Arguments

tree	phylogenetic tree (ape class)
tips	vector of tip names
preserve.age	maintain the root to tip distance of the tree

Details

Based on ape's drop.tip but with preserve.age. This will ensure the root to tip distance of the tree is maintained by adding length to next immediate internal edge whenever the removal of a tip leads to a reduction in a tree's age. If root node is lost, then lost edge length is added to root.edge slot.

References

No references yet! https://github.com/DomBennett/MoreTreeTools.

Examples

tree <- rtree (10)
par (mfrow=c (1,3))
plot (tree)
plot (removeTip (tree, tips=c ('t1', 't2', 't3'), preserve.age=FALSE))
plot (removeTip (tree, tips=c ('t1', 't2', 't3'), preserve.age=TRUE), root.edge=TRUE)

DomBennett/MoreTreeTools documentation built on May 6, 2019, 2:51 p.m.