[R] Ridge regression and mixed models

Dimitri Liakhovitski
Mon, 04 Oct 2010 21:17:30 -0000

Curious - what would be the purpose of this regression?

On Mon, Oct 4, 2010 at 4:39 PM, harezlak at post.harvard.edu
<jarek67h at yahoo.com> wrote:
> Dear R users,
> ?An equivalence between linear mixed model formulation and penalized
regression
> models (including the ridge regression and penalized regression splines)
has
> proven to be very useful in many aspects. Examples include the use of the
lme()
> function in the library(nlme) to fit smooth models including the estimation
of a
> smoothing parameter using REML. My question concerns the use of the linear
mixed
> model software to fit a ridge regression with the number of columns in the
> design matrix X (p) exceeding the number of observations (n). Has anybody
in the
> R community implemented the LME-like approach with estimation of the
variance
> components using REML to find the coefficient estimates (BLUEs) and
predictors
> (BLUPs) in the ridge regression problem in the "p > n"
?setting?
>
> Sample code below summarizes my problem:
> ####################################################
> version$version.string
> # [1] "R version 2.11.1 (2010-05-31)"
>
> library(nlme)
>
> # DATA generation:
> dim <- 200
> n <- 50
> XX <- matrix(rnorm(dim*n, 0, 0.1), ncol=dim, nrow=n)
> beta <- matrix(c(rep(1, 40), rep(2,20), rep(0,140)), ncol=1)
> Y <- XX %*% beta + rnorm(n)
>
> # MODEL fit:
> dummyId <- factor(rep(1,n))
> Z.block <- list(dummyId=pdIdent(~-1+XX))
> data.fr <- data.frame(Y,XX)
> fit <- lme(Y~1,
> ? ? ? ?data=data.fr,
> ? ? ? ?random=Z.block)
>
> # ERROR:
> Warning message:
> In lme.formula(Y ~ 1, data = data.fr, random = Z.block) :
> ?Fewer observations than random effects in all level 1 groups
> #############################################################
>
> Thank you in advance,
> Jarek ?Harezlak
>
>
>
> ? ? ? ?[[alternative HTML version deleted]]
>
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>



--
Dimitri Liakhovitski
Ninah Consulting