> Date: Thu, 2 Jun 2005 11:47:15 +0200 > From: Peter S?rensen (HAG) <peter.sorensen2@agrsci.dk> > Subject: [BioC] random block effect and technical replicates within > array at the same in linear model using Limma ? > To: <bioconductor@stat.math.ethz.ch> > > Dear list, > > I have an experiment with 24 arrays. > I have 3 factors each with 2 levels and 12 blocks (1,1,2,2,3,3,....,12,12). > Each gene is replicated 4 times on each array. > > I know how to fit blocks as random as explained in the Limma manual (Technical replication I) > I know how to account for the replication within arrays. > > > Is it possible to fit random block effect and technical replicates within array at the same in > linear model using Limma ? No it isn't. (Being able to do so awaits the development of new theory.) See ?duplicateCorrelation 2nd paragraph of "Details:", or ?lmFit 4th paragraph of "Details:". Gordon > Thanks > Peter