| check.MCmcmc {MethComp} | R Documentation |
These functions display traces, posterior densities and autocorrelation functions for the relevant subset of the parameters in a MCmcmc object.
## S3 method for class 'MCmcmc':
trace( obj, what = "sd",
scales = c("same", "free"),
layout = "col",
aspect = "fill", ...)
## S3 method for class 'MCmcmc':
post( obj, what ="sd",
check = TRUE,
scales = "same",
layout = "row",
lwd = 2,
col,
plot.points = FALSE,
aspect = "fill", ... )
## S3 method for class 'MCmcmc':
pairs( x, subset,
col = NULL,
pch = 16,
cex = 0.2, ... )
obj |
A MCmcmc object. |
x |
A MCmcmc object. |
what |
Character indicating what parameters to plot.
Possible values are "sd" or "var" which
gives plots for the variance components (on the sd. scale),
"beta" or "slope", which gives plots for
slope parameters and "alpha" or "int", which
gives plost for the intercept parameters. |
scales |
Character vector of length two, indicating whether x- and y-axes of the plots should be constrained to be the same across panels. |
layout |
Character. If "col" parameters are displayed columnwise
by method, if "row" they are displayed row-wise. |
aspect |
How should the panels be scaled. Default ("fill") is to
make a panels take up as much place as possible. |
check |
Logical. Should the density plots be separate for each chain (in order to check convergence) or should the chains be merged. |
lwd |
Width of the lines used for plotting of the posterior densities. |
col |
Color of the lines used for plotting of the posterior densities. |
plot.points |
Logical. Should a rug with actual data points be plotted beneath the density. |
pch |
Plot symbol for the points. |
subset |
Character or numerical indicationg the columns of the posterior
that should be plotted by pairs. |
cex |
Plot character size for points in pairs. |
... |
Further aruments passed on to the Lattice
function called:
trace calls xyplot,
post calls densityplot,
pairs calls pairs. |
A Lattice plot is returned, which means that it must
printed when these functions are called in a batch program or
inside another function or for-loop.
trace plots traces of the sampled chains,
post plots posterior densities of the parameters and
pairs plots a scatter-plot matrix of bivariate marginal
posterior distributions.
A Lattice plot.
Bendix Carstensen.
# Load a provided MCmcmc object # data( ox.MC ) # trace.MCmcmc( ox.MC ) # trace.MCmcmc( ox.MC, "beta" ) # post.MCmcmc( ox.MC ) # post.MCmcmc( ox.MC, "beta" ) # pairs.MCmcmc( ox.MC, "sd" )