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plotProfiles

Plot individual longitudinal profiles

Description

It creates a plot of individual longitudinal profiles. It is based on the output from getProfiles function.

Usage

plotProfiles(ip, data, var, trans, tvar, gvar,
             auto.layout=TRUE, lines=TRUE, points=FALSE, add=FALSE,
             xlab="Time", ylab, xaxt="s", yaxt="s", xlim, ylim, main,
             lcol, col, bg, lty=1, lwd=1, pch=21, cex.points=1,
             highlight, lines.highlight=TRUE, points.highlight=TRUE,
             lcol.highlight="red3", col.highlight="red3", bg.highlight="orange",
             lty.highlight=1, lwd.highlight=2,
             pch.highlight=23, cex.highlight=1)

Arguments

ip

output from getProfiles function containing extracted individual longitudinal profiles of each subject.
data

data.frame used to produce ip. It is used to detect ranges for some variables.
var

character string identifying the response variable to plot.
trans

possible transformation of the response variable.
tvar

character string identifying the time variable.
gvar

character string identifying the group variable for which different colors are used.
auto.layout

logical. If TRUE, the layout of the plotting region is determined automatically.
lines

logical. If TRUE, lines are drawn in the plot connecting observations within individuals.
points

logical. If TRUE, points are added to the plot.
add

logical. If TRUE, the new plot overlays the old one.
lcol

color for lines.
col

color for points.
xlab, ylab, xaxt, yaxt, xlim, ylim, main, bg, lty, lwd, pch

arguments passed to standard plotting functions. col might also be a vector in which case different colors are used for profiles from different groups identified by the gvar variable.
cex.points

passed as a cex argument to points function used when points = TRUE.
highlight

an optional numeric vector giving the indeces of ip for which the longitudinal profiles should be highlighted.
lines.highlight

logical. If TRUE, highlighting is done using lines.
points.highlight

logical. If TRUE, highlighting is done using points.
lcol.highlight, col.highlight, bg.highlight, lty.highlight, lwd.highlight, pch.highlight, cex.highlight

arguments col, bg, lty, lwd, pch, cex passed to lines and/or points functions which provide highlighting of selected profiles.

Value

Invisible ip.

Author(s)

See Also

Examples

data(PBCseq, package="mixAK")
ip <- getProfiles(t="day", y=c("age", "fdrug", "bili", "platelet", "spiders"),
                  id="id", data=PBCseq)

XLIM <- c(0, 910)
lcol2 <- c("darkgreen", "red")

oldPar <- par(mfrow=c(1, 3), bty="n")
plotProfiles(ip=ip, data=PBCseq, xlim=XLIM, var="bili", trans=log, tvar="day", gvar="fdrug",
             xlab="Time (days)", col=lcol2, auto.layout=FALSE, main="Log(bilirubin)",
             highlight=c(2, 4), col.highlight="darkblue")
plotProfiles(ip=ip, data=PBCseq, xlim=XLIM, var="platelet", tvar="day", gvar="fdrug",
             xlab="Time (days)", col=lcol2, auto.layout=FALSE, main="Platelet count",
             highlight=c(2, 4), col.highlight="darkblue")
plotProfiles(ip=ip, data=PBCseq, xlim=XLIM, var="spiders",  tvar="day", gvar="fdrug",
             xlab="Time (days)", col=lcol2, auto.layout=FALSE,
             lines=FALSE, points=TRUE,
             highlight=c(2, 4), col.highlight="darkblue", bg.highlight="skyblue") 
par(oldPar)
mixAK

Multivariate Normal Mixture Models and Mixtures of Generalized Linear Mixed Models Including Model Based Clustering

v5.3
GPL (>= 3)
Authors
Arnošt Komárek <arnost.komarek@mff.cuni.cz>
Initial release
2020-06-02

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