This function adds new tips at random to a tree with branch lengths.
add.random(tree, n=NULL, tips=NULL, edge.length=NULL, order=c("random","input"))An object of class "phylo".
an object of class "phylo".
a number of tips to add to the tree. If NULL, will use length(tips). If tips is specified, then n is also ignored, regardless of its value.
a set of tip names for the added tips. If NULL, names will be supplied
terminal edge length for the added tips. If NULL, and is.ultrametric(tree) ==TRUE, then edge lengths will be assigned to keep the tree ultrametric. Note that if edge lengths are assigned and n>1, then the assigned terminal edge lengths are not guaranteed as subsequent random tip addition could occur along the new terminal edge.
addition order for the new tips.
Liam Revell liam.revell@umb.edu
If no edge lengths are provided, and the tree is ultrametric, then edge lengths are assigned to keep the tree ultrametric.
The probability that at new tip is added along any branch is directly proportional to the length of the branch.
Note that sometimes the resultant tree plotted with plot.phylo or plotSimmap may display with branches crossing. If so, the tree can be 'untangled' using untangle.
Revell, L. J. (2024) phytools 2.0: an updated R ecosystem for phylogenetic comparative methods (and other things). PeerJ, 12, e16505.
allFurcTrees, add.everywhere