search for: wolfinger

Hi, concerning my earlier mail, maybe someone has noted from the variable names that I try to analyse mircoarrary experiments. Does anybody know of a R-implementation of the two-step mixed-model normalization procedure proposed by Wolfinger et al. (2001) J. Comput. Biol. 8:625-637? That would be great, best, joerg

Hi, I would like to derive p-values for pair-wise comparison (Tukey's) of effects when the response is a count. I am trying a test case where y ~ Po( lambda(x) ). x has three levels : A, B and C with lambda(x) = 10, 20 and 20 respectively. Hence, p-values for the contrast C - B should distribute uniformally. I have implemented this test case as below but do not get uniform

...imum likelihood (REML) estimates for linear mixed-effects models with single or multiple nested levels of random effects. The library includes a SAS_Mixed directory with R transcripts of analyses paralleling those in the book "SAS System for Mixed Models" by Littell, Milliken, Stroup and Wolfinger. Please ensure that you get the lme_2.9-2.tar.gz file. The lme_2.9-1.tar.gz file has problems with installation of the help files and has the wrong version listed in the DESCRIPTION file. (If you really want to install lme_2.9-1.tar.gz you can do so by removing the file lme/man/[.pdMat.Rd before...

Dear R-users Coming from a proc mixed (SAS) background I am trying to get into the use of (n)lme. In this connection, I have some (presumably stupid) questions which I am sure someone out there can answer: 1) With proc mixed it is easy to get a hold on the estimated variance parameters as they can be put out into a SAS data set. How do I do the same with lme-objects? For example, I can see the

...755. > > Westfall, P.H., and Soper, K.A. (2001). "Using priors to improve > multiple animal carcinogenicity tests<http://pubs.amstat.org/doi/pdfplus/10.1198/016214501753208852 >> ", Journal of the American Statistical Association 96, 827-834. > > Westfall, P.H. and Wolfinger, R.D.(1997). "Multiple Tests with > Discrete Distributions<http://www.jstor.org/stable/2684683>," The > American Statistician 51, 3-8. > > for the finite sample case. > > For the asymptotic case with Poisson etc, see > > Hothorn, T., Bretz, F., and Westfall,...