diag_ssm {bsam} | R Documentation |
Plot standard McMC convergence diagnostics to help determine lack of model convergence.
Description
Takes a fitted fit_ssm
object and uses standard McMC convergence diagnostic plots to
aid assessment of lack of convergence.
Usage
diag_ssm(fit)
Arguments
fit |
an output object from |
Value
Uses plotting functions from Martyn Plummer's coda
package to help
diagnose lack of convergence for the core model parameters. The traceplot shows the time
series for both McMC chains; the density plot shows the density estimate for each parameter;
the autocorrelation plots show the within-chain sample autocorrelation for each parameter;
the G-B-R shrink factor plot shows the evolution of Gelman and Rubin's shrink factor for
increasing number of iterations. See the coda
package for further details.
References
Brooks SP, Gelman A (1998) General methods for monitoring convergence of iterative simulations. Journal of Computational and Graphical Statistics 7:434-455