Thess functions parse chronograms in NEXUS format as produced by TreeAnnotator or output by MrBayes.
read.mrbayes(file, digits = NULL)read.beast(file, digits = NULL)
read.starbeast(file)
A character string giving the input file, which must be a TreeAnnotator-generated chronogram in NEXUS format.
NULL or integer, if !is.null(digits) values are rounded to the given integer.
An object of class phylo
TreeAnnotator: http://beast.bio.ed.ac.uk/TreeAnnotator
Metacomments in NEXUS: http://code.google.com/p/beast-mcmc/wiki/NexusMetacommentFormat
read.beast.table to extract internal node data from NEXUS file, rbeauti to create XML input for BEAST. HPDbars for plotting highest posterior densities on phylogenies has been moved to package viper.