plotSplom: Plot MCMC Scatterplot Matrix

In arnima-github/plotMCMC: MCMC Diagnostic Plots

Plot MCMC Scatterplot Matrix

Description

Plot scatterplots of multiple Markov chain Monte Carlo chains. This is a diagnostic plot for deciding whether parameters are confounded. When parameter estimates are highly dependent on each other, it may undermine conclusions based on MCMC results of that model.

Usage

plotSplom(mcmc, axes=FALSE, between=0, div=1, log=FALSE, base=10, ...)

Arguments

mcmc	MCMC chains as a data frame or mcmc object.
axes	whether axis values should be plotted.
between	space between panels.
div	denominator to shorten values on the y axis.
log	whether values should be log-transformed.
base	logarithm base.
...	passed to pairs.

Value

Null, but a plot is drawn on the current graphics device.

Note

The Args function from the gdata package is recommended for reviewing the arguments, instead of args.

See Also

pairs is the underlying drawing function, and splom is a similar trellis plot.

plotTrace, plotAuto, plotCumu, and plotSplom are diagnostic plots.

plotDens and plotQuant are posterior plots.

plotMCMC-package gives an overview of the package.

Examples

plotSplom(xpar, pch=".")
plotSplom(xpro, axes=TRUE, between=1, div=1000, main="Future biomass",
          cex.labels=1.5, pch=".", cex=3)

arnima-github/plotMCMC documentation built on Dec. 4, 2023, 8:16 p.m.