densityplot

Displays a series of density plots for posteriors of monitored parameters in a JAGS analysis.

A set of wrappers around 'rjags' functions to run Bayesian analyses in 'JAGS' (specifically, via 'libjags').  A single function call can control adaptive, burn-in, and sampling MCMC phases, with MCMC chains run in sequence or in parallel. Posterior distributions are automatically summarized (with the ability to exclude some monitored nodes if desired) and functions are available to generate figures based on the posteriors (e.g., predictive check plots, traceplots). Function inputs, argument syntax, and output format are nearly identical to the 'R2WinBUGS'/'R2OpenBUGS' packages to allow easy switching between MCMC samplers.

Ken Kellner

jagsUI

A Wrapper Around 'rjags' to Streamline 'JAGS' Analyses

Mike Meredith

densityplot function

<dl> <dt>x</dt>
<dd>A jagsUI object</dd> <dt>parameters</dt>
<dd>A vector of names (as characters) of parameters to plot. Parameter names must match parameters included in the model. Calling non-scalar parameters without subsetting (e.g. <code>alpha</code>) will plot all values of <code>alpha</code>. If <code>parameters=NULL</code>, all parameters will be plotted.</dd> <dt>layout</dt>
<dd>A length 2 vector with the number of rows and columns to display in the plot. The default is 3 x 3, or smaller if there are fewer parameters to plot.</dd> <dt>ask</dt>
<dd>If <code>TRUE</code>, ask user for confirmation before generating each new plot; the default is to ask when output is going to the screen, not when it is going to a file.</dd></dl>

Arguments

Ken Kellner <a href="/link/contact%40kenkellner.com?package=jagsUI&version=1.6.2" data-mini-rdoc="jagsUI::contact@kenkellner.com">contact@kenkellner.com</a>.

Author

Density plots of JAGS output — densityplot

<dl>

 <dt>x</dt>
<dd>A jagsUI object</dd>

 <dt>parameters</dt>
<dd>A vector of names (as characters) of parameters to plot. Parameter names must match parameters included in the model. Calling non-scalar parameters without subsetting (e.g. <code>alpha</code>) will plot all values of <code>alpha</code>. If <code>parameters=NULL</code>, all parameters will be plotted.</dd>

 <dt>layout</dt>
<dd>A length 2 vector with the number of rows and columns to display in the plot. The default is 3 x 3, or smaller if there are fewer parameters to plot.</dd>

 <dt>ask</dt>
<dd>If <code>TRUE</code>, ask user for confirmation before generating each new plot; the default is to ask when output is going to the screen, not when it is going to a file.</dd>

</dl>

Ken Kellner <a href='mailto:contact@kenkellner.com'>contact@kenkellner.com</a>.

densityplot: Density plots of JAGS output

Description

Usage

Arguments

Author