Display the PMCMC posterior distribution — plot,SimInf

Display the (approximate) posterior distributions obtained from fitting a particle Markov chain Monte Carlo algorithm, or the corresponding trace plots.

Usage

# S4 method for class 'SimInf_pmcmc'
plot(x, y, start = 1, end = NULL, thin = 1, ...)

Arguments

x: The SimInf_pmcmc object to plot.
y: The trace of all variables and logPost are plotted when y = "trace" or y = ~trace, else the posterior distributions are plotted. Default is to plot the posterier distributions.
start: The start iteration to remove some burn-in iterations. Default is start = 1.
end: the last iteration to include. Default is NULL which set end to the last iteration in the chain.
thin: keep every thin iteration after the start iteration. Default is thin = 1, i.e., keep every iteration.
...: Additional arguments affecting the plot.