plot.nmGroupedData {nlme}  R Documentation 
The groupedData
object is summarized by the values of the
displayLevel
grouping factor (or the combination of its values
and the values of the covariate indicated in preserve
, if any is
present). The collapsed data is used to produce a new
groupedData
object, with grouping factor given by the
displayLevel
factor, which is plotted using the
appropriate plot
method for groupedData
objects with
single level of grouping.
## S3 method for class 'nmGroupedData': plot(x, collapseLevel, displayLevel, outer, inner, preserve, FUN, subset, key, grid, ...)
x 
an object inheriting from class nmGroupedData ,
representing a groupedData object with multiple grouping
factors.

collapseLevel 
an optional positive integer or character string indicating the grouping level to use when collapsing the data. Level values increase from outermost to innermost grouping. Default is the highest or innermost level of grouping. 
displayLevel 
an optional positive integer or character string
indicating the grouping level to use for determining the panels in
the Trellis display, when outer is missing. Default is
collapseLevel .

outer 
an optional logical value or onesided formula,
indicating covariates that are outer to the displayLevel
grouping factor, which are used to determine the panels of the
Trellis plot. If equal to TRUE , the displayLevel
element attr(object, "outer") is used to indicate the
outer covariates. An outer covariate is invariant within the sets
of rows defined by the grouping factor. Ordering of the groups is
done in such a way as to preserve adjacency of groups with the same
value of the outer variables. Defaults to NULL , meaning that
no outer covariates are to be used.

inner 
an optional logical value or onesided formula, indicating
a covariate that is inner to the displayLevel grouping factor,
which is used to associate points within each panel of the Trellis
plot. If equal to TRUE , attr(object, "outer") is used
to indicate the inner covariate. An inner covariate can change within
the sets of rows defined by the grouping factor. Defaults to
NULL , meaning that no inner covariate is present.

preserve 
an optional onesided formula indicating a covariate
whose levels should be preserved when collapsing the data according
to the collapseLevel grouping factor. The collapsing factor is
obtained by pasting together the levels of the collapseLevel
grouping factor and the values of the covariate to be
preserved. Default is NULL , meaning that no covariates need to
be preserved.

FUN 
an optional summary function or a list of summary functions
to be used for collapsing the data. The function or functions are
applied only to variables in object that vary within the
groups defined by collapseLevel . Invariant variables are
always summarized by group using the unique value that they assume
within that group. If FUN is a single
function it will be applied to each noninvariant variable by group
to produce the summary for that variable. If FUN is a list of
functions, the names in the list should designate classes of
variables in the data such as ordered , factor , or
numeric . The indicated function will be applied to any
noninvariant variables of that class. The default functions to be
used are mean for numeric factors, and Mode for both
factor and ordered . The Mode function, defined
internally in gsummary , returns the modal or most popular
value of the variable. It is different from the mode function
that returns the Slanguage mode of the variable. 
subset 
an optional named list. Names can be either positive
integers representing grouping levels, or names of grouping
factors. Each element in the list is a vector indicating the levels
of the corresponding grouping factor to be used for plotting the
data. Default is NULL , meaning that all levels are
used. 
key 
an optional logical value, or list. If TRUE , a legend
is included at the top of the plot indicating which symbols (colors)
correspond to which prediction levels. If FALSE , no legend
is included. If given as a list, key is passed down as an
argument to the trellis function generating the plots
(xyplot ). Defaults to TRUE . 
grid 
an optional logical value indicating whether a grid should
be added to plot. Default is TRUE . 
... 
optional arguments passed to the Trellis plot function. 
a Trellis display of the data collapsed over the values of the
collapseLevel
grouping factor and grouped according to the
displayLevel
grouping factor.
Jose Pinheiro Jose.Pinheiro@pharma.novartis.com and Douglas Bates bates@stat.wisc.edu
Bates, D.M. and Pinheiro, J.C. (1997), "Software Design for Longitudinal Data", in "Modelling Longitudinal and Spatially Correlated Data: Methods, Applications and Future Directions", T.G. Gregoire (ed.), SpringerVerlag, New York.
Pinheiro, J.C. and Bates, D.M. (1997) "Future Directions in MixedEffects Software: Design of NLME 3.0" available at http://franz.stat.wisc.edu/pub/NLME.
groupedData
, collapse.groupedData
,
plot.nfnGroupedData
, plot.nffGroupedData
# no collapsing, panels by Dog plot(Pixel, display = "Dog", inner = ~Side) # collapsing by Dog, preserving day plot(Pixel, collapse = "Dog", preserve = ~day)