paramDiagnostic: paramDiagnostic

In hferg/btrtools:

Description

Plots 4 MCMC diagnostics for a parameter

Usage

paramDiagnostic(logfile, pars, type = NULL, cols = 2, thinning = 1,
  burnin = 0, title = NULL)

Arguments

logfile	The name of the logfile of the BayesTraits run
pars	A vector of the names of the parameters to generate diagnostic plots for.
type	The type of diagnostic plot, if plotting across many parameters. Either "autocor", "dens", "trace" or "runmean"
cols	The number of columns for multiple plotting.
thinning	Thinning parameter for the posterior - defaults to 1 (all samples). 2 uses every second sample, 3 every third and so on.
burnin	The number of generations to remove from the start of the chain as burnin.

Examples

paramDiagnostic("cool-data.log", "Lh")
params <- getParams("cool-data.log")
paramDiagnostic("cool-data.log", params, type = "trace", cols = 3)

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