skewlmm (version 1.1.3)

plot.mahalDist: Plot Mahalanobis distance for a fitted smn.lmm or smsn.lmm

Description

Plot method for objects of class "mahalDist". For the total Mahalanobis distance, it gives a quantile for outlier detection, based on the Mahalanobis distance theoretical distribution.

Usage

# S3 method for mahalDist
plot(x, fitobject, type, level = 0.99, nlabels = 3, ...)

Value

A ggplot object, plotting the index versus the Mahalanobis distance, if all subject have the same number of observations; or plotting the number of observations per subject versus the Mahalanobis, otherwise.

Arguments

x

An object inheriting from class mahalDist, representing the Mahalanobis distance from a fitted scale mixture of (skew) normal linear mixed model.

fitobject

Optional. An object inheriting from class SMN or SMSN, representing the fitted scale mixture of (skew) normal linear mixed model that was used for calculating the Mahalanobis distance.

type

Optional. Either "total" (default), for the standard Mahalanobis distance, "error", for the error term of the decomposition, or "b" for the random effect term of the decomposition. For details see mahalDist.

level

An optional numeric value in \((0,1)\) indicating the level of the quantile. It only has utility if type="total". Default is 0.99.

nlabels

Number of observations that should be labeled. Default is 3.

...

Additional arguments.

Author

Fernanda L. Schumacher, Larissa A. Matos and Victor H. Lachos

See Also

ggplot, mahalDist, smn.lmm, smsn.lmm

Examples

fm1 = smn.lmm(distance ~ age+Sex, data=nlme::Orthodont, groupVar="Subject")
plot(mahalDist(fm1), nlabels=2)

#the estimated quantile is stored at the attribute "info" of the plot object
plotMD = plot(mahalDist(fm1))
attr(plotMD, "info")