| ranef.lme {nlme} | R Documentation |
The estimated random effects at level i are represented as a data frame with rows given by the different groups at that level and columns given by the random effects. If a single level of grouping is specified, the returned object is a data frame; else, the returned object is a list of such data frames. Optionally, the returned data frame(s) may be augmented with covariates summarized over groups.
## S3 method for class 'lme':
ranef(object, augFrame, level, data, which, FUN,
standard, omitGroupingFactor, subset, ...)
object |
an object inheriting from class lme, representing
a fitted linear mixed-effects model. |
augFrame |
an optional logical value. If TRUE, the returned
data frame is augmented with variables defined in data; else,
if FALSE, only the coefficients are returned. Defaults to
FALSE. |
level |
an optional vector of positive integers giving the levels of grouping to be used in extracting the random effects from an object with multiple nested grouping levels. Defaults to all levels of grouping. |
data |
an optional data frame with the variables to be used for
augmenting the returned data frame when augFrame =
TRUE. Defaults to the data frame used to fit object. |
which |
an optional positive integer vector specifying which
columns of data should be used in the augmentation of the
returned data frame. Defaults to all columns in data. |
FUN |
an optional summary function or a list of summary functions
to be applied to group-varying variables, when collapsing data
by groups. Group-invariant variables are always summarized by the
unique value that they assume within that group. If FUN is a
single function it will be applied to each non-invariant 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 frame such as ordered, factor, or
numeric. The indicated function will be applied to any
group-varying 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 S-language mode of the variable. |
standard |
an optional logical value indicating whether the
estimated random effects should be "standardized" (i.e. divided by
the estimate of the standard deviation of that group of random
effects). Defaults to FALSE. |
omitGroupingFactor |
an optional logical value. When TRUE
the grouping factor itself will be omitted from the group-wise
summary of data but the levels of the grouping factor will
continue to be used as the row names for the returned data frame.
Defaults to FALSE. |
subset |
an optional expression indicating for which rows the random effects should be extracted. |
... |
some methods for this generic require additional arguments. None are used in this method. |
a data frame, or list of data frames, with the estimated
random effects at the grouping level(s) specified in level and,
optionally, other covariates summarized over groups. The returned
object inherits from classes random.effects.lme and
data.frame.
Jose Pinheiro Jose.Pinheiro@pharma.novartis.com and Douglas Bates bates@stat.wisc.edu
Pinheiro, J.C., and Bates, D.M. (2000) "Mixed-Effects Models in S and S-PLUS", Springer, esp. pp. 100, 461.
coef.lme,
gsummary,
lme,
plot.ranef.lme,
random.effects
fm1 <- lme(distance ~ age, Orthodont, random = ~ age | Subject) ranef(fm1) random.effects(fm1) # same as above random.effects(fm1, augFrame = TRUE)