plot.SLik {Infusion} | R Documentation |
Plot SLik or SLikp objects
Description
Mostly conceived for exposition purposes, for the two-parameters case.
The black-filled points are those for which the observed summary statistic was outside of the convex hull of the simulated empirical distribution. The crosses mark the estimated ML point and the confidence intervals points, that is, the outmost points on the contour defined by the profile likelihood threshold for the profile confidence intervals. There is a pair of CI points for each interval.
The smaller black dots mark points added in the latest iteration, if refine
was used.
Usage
## S3 method for class 'SLik'
plot(x, y, filled = FALSE, decorations = NULL,
color.palette = NULL, plot.axes = NULL,
plot.title = NULL, plot.slices=TRUE, ...)
## S3 method for class 'SLik_j'
plot(x, y, filled = nrow(x$logLs)>5000L, decorations = NULL,
color.palette = NULL, plot.axes = NULL,
plot.title = NULL, from_refine=FALSE, plot.slices=TRUE, ...)
Arguments
x |
An object of class |
y |
Not used, but included for consistency with the |
filled |
whether to plot a |
decorations |
Graphic directives added to the default |
color.palette |
Either NULL or a function that can replace the default color function used by |
plot.title |
statements which replace the default titles to the main plot (see Details). |
plot.axes |
statements which replace the default axes on the main plot (see Details). |
from_refine |
For programming purposes, not documented. |
plot.slices |
boolean: whether to plot “slices” of the summary-likelihood surface for pairs of parameters (p1,p2), when more than two parameters are fitted. In such plots the additional parameters p3, p4... are fixed to their estimates [in contrast to profile plots where p3, p4... take distinct values for each (p1,p2), maximizing the function for each (p1,p2)]. |
... |
further arguments passed to or from other methods (currently can be used to pass a few arguments such as |
Details
Different graphic functions are called depending on the number of estimated parameters. For two parameters, mapMM
or filled.mapMM
are called. For more than two parameters, spaMM.filled.contour
is called. See the documentation of these functions for the appropriate format of the plot.title
and plot.axes
arguments.
Value
Returns the plotted object invisibly.
Examples
## Not run:
## Using 'slik_j' object from the example in help("example_reftable")
plot(slik_j,filled=TRUE,
plot.title=quote(title("Summary-likelihood-ratio surface",
xlab=expression(mu),
ylab=expression(sigma^2))))
## End(Not run)