phytools (version 0.2-40)

minSplit: Finding the minimum (median) split in the posterior sample

Description

This function takes a phylogenetic tree and a list of splits and identifies the split with the smallest summed or summed squared distances to all the other splits. Used to be called min.split().

Usage

minSplit(tree, split.list, method="sum", printD=FALSE)

Arguments

tree

a phylogenetic tree in "phylo" format.

split.list

either a matrix with two named columns, "node" and "bp"; a $mcmc matrix from evol.rate.mcmc(); or the entire raw output from evol.rate.mcmc().

method

an optional string indicating the criterion to minimize: options are "sum" and "sumsq".

printD

logical specifying whether to print distances to screen (FALSE by default).

Value

• a list with the following components:
• node
  node for the minimum split.
• bp
  location on the branch leading to node of the minimum split.

References

Revell, L. J., D. L. Mahler, P. Peres-Neto, and B. D. Redelings. 2012. A new method for identifying exceptional phenotypic diversification. Evolution, 66, 135-146.

See Also

evol.rate.mcmc, posterior.evolrate