tipdate.ci: Get coalescent intervals for a tip-dated tree

Description Usage Arguments Details Value Author(s)

Description

Similar to ape's coalescent intervals, except it works when the tree is not ultrametric. This is being used for now as a helper function for treeHeight

Usage

1
tipdate.ci(tr, show.plot = F)

Arguments

tr

A tree in phylo format

show.plot

Should a plot be generated highlighting the coalescent events

Details

This is mainly being used with treeHeights for now, but it is a good way to get the coalescent intervals for a tree. Be aware though that the tree needs to be down-convert to ape:::phylo format first.

Value

lineages

The number of extant lineages during this interval

interval.length

The length of each interval

interval.count

The total number of coalescent intervals

total.depth

The height or depth of the tree

I

Indicator for whether or not the event is a coalescent event (1) or a sampling event (0)

Author(s)

J. Conrad Stack


phyext documentation built on May 2, 2019, 5:19 p.m.