plot.iterquad {LaplacesDemon}  R Documentation 
Plot the output of IterativeQuadrature
Description
This may be used to plot, or save plots of, the iterated history of
the parameters and, if posterior samples were taken, density plots of
parameters and monitors in an object of class iterquad
.
Usage
## S3 method for class 'iterquad'
plot(x, Data, PDF=FALSE, Parms, ...)
Arguments
x 
This required argument is an object of class 
Data 
This required argument must receive the list of data that was
supplied to 
PDF 
This logical argument indicates whether or not the user wants Laplace's Demon to save the plots as a .pdf file. 
Parms 
This argument accepts a vector of quoted strings to be matched for
selecting parameters for plotting. This argument defaults to

... 
Additional arguments are unused. 
Details
The plots are arranged in a 2 \times 2
matrix. The
purpose of the iterated history plots is to show how the value of each
parameter and the deviance changed by iteration as the
IterativeQuadrature
attempted to fit a normal
distribution to the marginal posterior distributions.
The plots on the right show several densities, described below.
The transparent black density is the normalized quadrature weights for nonstandard normal distributions,
M
. For multivariate quadrature, there are often multiple weights at a given node, and the averageM
is shown. Vertical black lines indicate the nodes.The transparent red density is the normalized LP weights. For multivariate quadrature, there are often multiple weights at a given node, and the average normalized and weighted LP is shown. Vertical red lines indicate the nodes.
The transparent green density is the normal density implied given the conditional mean and conditional variance.
The transparent blue density is the kernel density estimate of posterior samples generated with Sampling Importance Resampling. This is plotted only if the algorithm converged, and if
sir=TRUE
.
Author(s)
Statisticat, LLC. software@bayesianinference.com
See Also
Examples
### See the IterativeQuadrature function for an example.