rjpp: rjpp

In hferg/bayestraitr: A set of tools to help with the interpretation and analysis of the output of BayesTraits MCMC analyses.

Description

A function that takes the output of a kappa, lambda, delta, VRates etc. RJ bayesTraits run and runs post-processing on it.

Usage

rjpp(rjlog, rjtrees, tree, burnin = 0, thinning = 1, meanbranches = TRUE,
  ratestable = TRUE)

Arguments

rjlog	The RJ output of the run - typically suffixed with .VarRates.txt
tree	The time tree the analysis was run on as an object of class "phylo", or the filename of the timetree.
burnin	The burnin (if required) for the mcmc (generally worked out from the other logfile)
thinning	Thinning parameter for the MCMC output - again, worked out from the raw MCMC output logfile.
meanbranches	If true, calculates mean, median and mode branch lengths and returns mean tree.
ratestable

hferg/bayestraitr documentation built on May 28, 2019, 8:55 p.m.