plots.thpr {lme4} R Documentation

## Mixed-Effects Profile Plots (Regular / Density / Pairs)

### Description

Xyplot, Densityplot, and Pairs plot methods for a mixed-effects model profile.

xyplot() draws “zeta diagrams”, also visualizing confidence intervals and their asymmetry.

densityplot() draws the profile densities.

splom() draws profile pairs plots. Contours are for the marginal two-dimensional regions (i.e. using df = 2).

### Usage

## S3 method for class 'thpr'
xyplot(x, data = NULL,
levels = sqrt(qchisq(pmax.int(0, pmin.int(1, conf)), df = 1)),
conf = c(50, 80, 90, 95, 99)/100,
absVal = FALSE, scales=NULL,
which = 1:nptot, ...)

## S3 method for class 'thpr'
densityplot(x, data, npts = 201, upper = 0.999, ...)

## S3 method for class 'thpr'
splom(x, data,
levels = sqrt(qchisq(pmax.int(0, pmin.int(1, conf)), 2)),
conf = c(50, 80, 90, 95, 99)/100,  which = 1:nptot,
draw.lower = TRUE, draw.upper = TRUE, ...)


### Arguments

 x a mixed-effects profile, i.e., of class "thpr", typically resulting from profile(fm) where fm is a fitted model from lmer (or its generalizations). data unused - only for compatibility with generic. npts the number of points to use for the densityplot(). upper a number in (0,1) to specify upper (and lower) boundaries as +/- qnorm(upper). levels the contour levels to be shown; usually derived from conf. conf numeric vector of confidence levels to be shown as contours. absVal logical indicating if abs(.)olute values should be plotted, often preferred for confidence interval visualization. scales plotting options to be passed to xyplot which integer or character vector indicating which parameters to profile: default is all parameters (see profile-methods for details). draw.lower (logical) draw lower-triangle (zeta scale) panels? draw.upper (logical) draw upper-triangle (standard dev/cor scale) panels? ... further arguments passed to xyplot, densityplot, or splom from package lattice, respectively.

### Value

xyplot:

a density plot, a "trellis" object (lattice package) which when print()ed produces plots on the current graphic device.

densityplot:

a density plot, a "trellis" object, see above.

splom:

a pairs plot, aka scatterplot matrix, a "trellis" object, see above.

profile, notably for an example.

### Examples

## see   example("profile.merMod")


[Package lme4 version 1.1-34 Index]