samplesPlot: Plot MCMC traceplots and density plots

In basicMCMCplots: Trace Plots, Density Plots and Chain Comparisons for MCMC Samples

Description

Plot MCMC traceplots and density plots

Usage

samplesPlot(
  samples,
  var = colnames(samples),
  ind = NULL,
  burnin = NULL,
  scale = FALSE,
  line = NULL,
  width = 7,
  height = 4,
  legend = TRUE,
  legend.location = "topright",
  traceplot = TRUE,
  densityplot = TRUE,
  file = NULL
)

Arguments

samples	Array of MCMC samples, or a list of samples from multiple chains in which case the first chain is used
var	Parameter names to plot
ind	Indices of MCMC samples to plot
burnin	Number of initial MCMC samples to discard (default: 0)
scale	Logical, whether to normalize each posterior chain
line	Numeric vector of true parameter values for adding lines to plots
width	Width of the plot
height	Height of the plot
legend	Logical, whether to include a legend of parameter names
legend.location	Location of legend
traceplot	Logical, whether to include traceplots (default: TRUE)
densityplot	Logaical, whether to include density plots (default: TRUE)
file	Optional filename to save figure as a file

Examples

samples <- cbind(rnorm(1000), rgamma(1000, 1))
colnames(samples) <- c('alpha', 'beta')
samplesPlot(samples)

basicMCMCplots documentation built on Nov. 5, 2021, 1:08 a.m.