minSplit

an object of class <code>"phylo"</code>.

tree

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

split.list

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

method

logical specifying whether to print distances to screen (<code>FALSE</code> by default).

printD

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.

phylogenetics

comparative method

Bayesian

A wide range of functions for phylogenetic analysis. Functionality is concentrated in phylogenetic comparative biology, but also includes a diverse array of methods for visualizing, manipulating, reading or writing, and even inferring phylogenetic trees and data. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, simulation of phylogenies and data, and multivariate analysis. There are a broad range of plotting methods for phylogenies and comparative data which include, but are not restricted to, methods for mapping trait evolution on trees, for projecting trees into phenotypic space or a geographic map, and for visualizing correlated speciation between trees. Finally, there are a number of functions for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data not covered by other packages. For instance, there are functions for randomly or non-randomly attaching species or clades to a phylogeny, for estimating supertrees or consensus phylogenies from a set, for simulating trees and phylogenetic data under a range of models, and for a wide variety of other manipulations and analyses that phylogenetic biologists might find useful in their research.

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

Description

Usage

Arguments

Value

References

See Also