localscalarPP: localscalarPP

Description Usage Arguments

Description

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

Usage

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localscalarPP(rjlog, rjtrees, tree, burnin = 0, thinning = 1,
  returnscales = FALSE, returnorigins = FALSE)

Arguments

rjlog

The RJ output of the run - typically suffixed with .VarRates.txt

tree

The tree the analysis was run on

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.

returnscales

Return full distributions of all scalar values that hit each node?

returnorigins

Return a list of the values of each scalar that originates at each node per iteration?


hferg/hfgr documentation built on May 17, 2019, 3:56 p.m.