a character vector specifying the name(s) of
the “component”. If length(name) > 1
or if name
= "ALL"
, a named list
of components will be returned. Possible values are:
"X"
:fixed-effects model matrix
"Z"
:random-effects model matrix
"Zt"
:transpose
of random-effects model matrix. Note that the structure
of Zt
has changed since lme4.0
; to get a
backward-compatible structure, use
do.call(Matrix::rBind,getME(.,"Ztlist"))
"Ztlist"
:list of components of the transpose of the
random-effects model matrix, separated by individual
variance component
"mmList"
:list of raw model matrices associated with random
effects terms
"y"
:response vector
"mu"
:conditional mean of the response
"u"
:conditional mode of the “spherical”
random effects variable
"b"
:conditional mode of the
random effects variable
"Gp"
:groups pointer vector.
A pointer to the beginning of each group of random
effects corresponding to the random-effects terms,
beginning with 0 and including a final element giving the
total number of random effects
"Tp"
:theta pointer vector. A pointer to the beginning of the theta
sub-vectors corresponding to the random-effects terms,
beginning with 0 and including a final element giving the
number of thetas.
"L"
:sparse Cholesky factor of the penalized random-effects model.
"Lambda"
:relative covariance factor Lambda of the random effects.
"Lambdat"
:transpose Lambda' of Lambda above.
"Lind"
:index vector for inserting elements of
theta into the nonzeros of Lambda.
"Tlist"
:vector of template matrices from which the blocks of
Lambda are generated.
"A"
:Scaled sparse model matrix (class
"dgCMatrix"
) for
the unit, orthogonal random effects, U, equal to
getME(.,"Zt") %*% getME(.,"Lambdat")
"RX"
:Cholesky factor for the fixed-effects parameters
"RZX"
:cross-term in the full Cholesky factor
"sigma"
:residual standard error; note that sigma(object)
is preferred.
"flist"
:a list of the grouping variables (factors)
involved in the random effect terms
"fixef"
:fixed-effects parameter estimates
"beta"
:fixed-effects parameter estimates (identical
to the result of fixef
, but without names)
"theta"
:random-effects parameter estimates: these
are parameterized as the relative Cholesky factors of
each random effect term
"ST"
:A list of S and T factors in the TSST' Cholesky
factorization of the relative variance matrices of the random
effects associated with each random-effects term. The unit lower
triangular matrix, T, and the diagonal matrix, S, for
each term are stored as a single matrix with diagonal elements
from S and off-diagonal elements from T.
"n_rtrms"
:number of random-effects terms
"n_rfacs"
:number of distinct random-effects grouping factors
"N"
:number of rows of X
"n"
:length of the response vector, y
"p"
:number of columns of the fixed effects model matrix, X
"q"
:number of columns of the random effects model matrix, Z
"p_i"
:numbers of columns of the raw model matrices, mmList
"l_i"
:numbers of levels of the grouping factors
"q_i"
:numbers of columns of the term-wise model matrices, ZtList
"k"
:number of random effects terms
"m_i"
:numbers of covariance parameters in each term
"m"
:total number of covariance parameters
"cnms"
:the “component names”, a list
.
"REML"
:0
indicates the model was fitted by maximum
likelihood, any other positive integer indicates fitting by
restricted maximum likelihood
"is_REML"
:same as the result of isREML(.)
"devcomp"
:a list consisting of a named numeric vector,
cmp
, and a named integer vector, dims
, describing
the fitted model. The elements of cmp
are:
- ldL2
twice the log determinant of L
- ldRX2
twice the log determinant of RX
- wrss
weighted residual sum of squares
- ussq
squared length of u
- pwrss
penalized weighted residual sum of squares,
“wrss + ussq”
- drsum
sum of residual deviance (GLMMs only)
- REML
REML criterion at optimum (LMMs fit
by REML only)
- dev
deviance criterion at optimum
(models fit by ML only)
- sigmaML
ML estimate of residual standard deviation
- sigmaREML
REML estimate of residual standard deviation
- tolPwrss
tolerance for declaring convergence in the
penalized iteratively weighted residual sum-of-squares (GLMMs only)
The elements of dims
are:
- N
number of rows of X
- n
length of y
- p
number of columns of X
- nmp
n-p
- nth
length of theta
- q
number of columns of Z
- nAGQ
see glmer
- compDev
see glmerControl
- useSc
TRUE
if model has a scale parameter
- reTrms
number of random effects terms
- REML
0
indicates the model was fitted by maximum
likelihood, any other positive integer indicates fitting by
restricted maximum likelihood
- GLMM
TRUE
if a GLMM
- NLMM
TRUE
if an NLMM
"offset"
:model offset
"lower"
:lower bounds on model parameters (random effects
parameters only).
"devfun"
:deviance function (so far only available for LMMs)
"glmer.nb.theta"
:negative binomial θ parameter,
only for glmer.nb
.