VGAM (version 0.7-5)

plotvgam: Default VGAM Plotting

Description

Component functions of a vgam-class object can be plotted with plotvgam(). These are on the scale of the linear/additive predictor.

Usage

plotvgam(x, newdata = NULL, y = NULL, residuals = NULL,
         rugplot = TRUE, se = FALSE, scale = 0, raw = TRUE,
         offset.arg = 0, deriv.arg = 0, overlay = FALSE,
         type.residuals = c("deviance", "working", "pearson", "response"),
         plot.arg = TRUE, which.term = NULL, which.cf = NULL,
         control = plotvgam.control(...), ...)

Arguments

x

A fitted VGAM object, e.g., produced by vgam(), vglm(), or rrvglm().

newdata

Data frame. May be used to reconstruct the original data set.

y

Unused.

residuals

Logical. If TRUE, residuals are plotted. See type.residuals

rugplot

Logical. If TRUE, a rug plot is plotted at the foot of each plot. These values are jittered to expose ties.

se

Logical. If TRUE, approximate $\pm 2$ pointwise standard error bands are included in the plot.

scale

Numerical. By default, each plot will have its own y-axis scale. However, by specifying a value, each plot's y-axis scale will be at least scale wide.

raw

Logical. If TRUE, the smooth functions are those obtained directly by the algorithm, and are plotted without having to premultiply with the constraint matrices. If FALSE, the smooth functions have been premult

offset.arg

Numerical vector of length $r$. These are added to the component functions. Useful for separating out the functions when overlay is TRUE. If overlay is TRUE and there is one covariate, using

deriv.arg

Numerical. The order of the derivative. Should be assigned an small integer such as 0, 1, 2. Only applying to s() terms, it plots the derivative.

overlay

Logical. If TRUE, component functions of the same covariate are overlaid on each other. The functions are centered, so offset.arg can be useful when overlay is TRUE.

type.residuals

if residuals is TRUE, the first possible value of this vector, is used to specify the type of residual.

plot.arg

Logical. If FALSE, no plot is produced.

which.term

Character or integer vector containing all terms to be plotted, e.g., which.term=c("s(age)", "s(height")) or which.term=c(2,5,9). By default, all are plotted.

which.cf

An integer-valued vector specifying which linear/additive predictors are to be plotted. The values must be from the set {1,2,...,$r$}. By default, all are plotted.

control

Other control parameters. See plotvgam.control.

...

Other arguments that can be fed into plotvgam.control. This includes line colors, line widths, line types, etc.

Value

• The original object, but with the preplot slot of the object assigned information regarding the plot.

Details

Many of plotvgam()'s options can be found in plotvgam.control, e.g., line types, line widths, colors.

References

Yee, T. W. and Wild, C. J. (1996) Vector generalized additive models. Journal of the Royal Statistical Society, Series B, Methodological, 58, 481--493.

Documentation accompanying the VGAM package at http://www.stat.auckland.ac.nz/~yee contains further information and examples.

See Also

vgam, plotvgam.control, predict.vgam, vglm.

Examples

data(coalminers)
coalminers = transform(coalminers, Age = (age - 42) / 5)
fit = vgam(cbind(nBnW,nBW,BnW,BW) ~ s(Age), binom2.or(zero=NULL), coalminers)
par(mfrow=c(1,3))
plot(fit, se=TRUE, ylim=c(-3,2), las=1)

plot(fit, se=TRUE, which.cf=1:2, lcol="blue", scol="red", ylim=c(-3,2))
plot(fit, se=TRUE, which.cf=1:2, lcol="blue", scol="red", overlay=TRUE)