lmer-class {lme4} | R Documentation |
lmer model representation
Description
A representation of a linear mixed-effects model using a
blocked, sparse, symmetric, column-oriented matrix and dense matrices.
Objects from the Class
Objects can be created by calls of the form new("lmer", ...)
or, more commonly, via the lmer
function.
Slots
flist
:- The list of (possibly permuted) grouping
factors for the random effects.
perm
:- A list of permutation vectors applied to the
grouping factors.
Parent
:- The extended parent array for the diagonal
elements of
L
.
bVar
:- A list of the diagonal inner blocks (upper
triangles only) of the positive-definite matrices on the diagonal
of the inverse of Z'Z+W.
L
:- The blocked sparse representation of the unit lower
triangular matrix in the LDL' factorization of Z'Z+W.
ZZpO
:- Object of class
"list"
~~
Omega
:- A list of numeric matrices providing the
components of symmetric, positive-definite matrix Omega. Only the
upper triangle of each component is used and stored.
D
:- A list of the diagonal factors (upper triangle) in the
LDL' decomposition of Z'Z+W.
REML
:- A
"logical"
indicator of whether the REML
criterion is being used to determine parameter estimates.
RXX
:- A matrix which is the (augmented) RXX component
or the corresponding component from the inverse of Z'Z+W
RZX
:- A matrix which is the (augmented) RZX component
or the corresponding component from the inverse of Z'Z+W
ZtZ
:- The blocks in the blocked sparse symmetric
representation of the original Z'Z matrix
XtX
:- The original X'X matrix
ZtX
:- The original Z'X matrix
cnames
:- Column names of the model matrices.
devComp
:- Numeric vector of length 4 giving the
components used to calculate the deviance. This slot's contents
are current if
status$factored
is TRUE
.
deviance
:- Numeric vector of length 2 containing the
deviance corresponding to the maximum likelihood (ML) and REML
criteria. This slot's contents are current if
status$factored
is TRUE
.
nc
:- Integer vector of the number of columns in
(augmented) model matrices and the number of observations in the
model frame.
Gp
:- Integer vector of 0-based row numbers of the
ZtX
and RZX
matrices where new groups begin.
groups of rows in
status
:Logical vector of length 2 indicating if the
object has been factored and if the factorization has been
inverted.
call
:A copy of the matched call to the function that
created the object.
Methods
- coef
signature(object = "lmer")
: Extract the
parameters that determine the Omega matrices. The optional
logical argument unconstr
determines the constrained or
unconstrained parameterization.
- coef<-
signature(object = "lmer", value = "numeric")
: Assign the
parameters that determine the Omega matrices. The optional
logical argument unconstr
determines the constrained or
unconstrained parameterization.
- coerce
signature(from = "lmer", to = "dtTMatrix")
:
Ensure that the lmer
object has been factored but not
inverted and extract the unit lower triangular matrix L
from the LDL decomposition of crossprod(Z)+Omega.
- coerce
signature(from = "lmer", to = "dsTMatrix")
:
Ensure that the lmer
object has been factored but not
inverted and extract the symmetric matrix crossprod(Z)+Omega.
- solve
signature(a = "lmer", b = "missing")
: Invert
the decomposed matrices.
[Package
lme4 version 0.95-6
Index]