prune specified taxa from a phylogenetic tree
pruning a set of taxa from a tree
a phylogenetic tree of class 'phylo'
rounding-error tolerance for taxa that do not reach the present day exactly
number of random taxa to prune from the tree
The functions prune taxa from a tree either at random or based either on a temporal criterion (whether the leaves reach the present within a given
tol). By default,
tol = min(phy$edge.length)/100. The result is a tree that has been pruned based on the given criterion. The function
is.extinct will return a vector of the tip labels of inferred extinct taxa (or NULL is no extinct taxa exist).
LJ Harmon, and JW Brown
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