Dear Corinna, please do post questions related to bioconductor packages directly to the bioconductor mailing list. You will have a much higher chance to get a helpful answer.
The B-statistic is explained best explained in the limma user guide (chapter 10), which comes with the limma package or from http://www.bioconductor.org/packages/release/bioc/html/limma.html Hope that helps, Georg "Schmitt, Corinna" <[EMAIL PROTECTED]> writes: > Hallo, > >> fit12<-lmFit(qrg[,1:2]) >> t12<-toptable(fit12,adjust="fdr",number=15000,genelist=qrg$genes[,1]) >> t12 > ID logFC t P.Value > adj.P.Val B > 1560 orf6.2714 -5,95911144 -7,504537362 0,0000000000000616459272630 > 0,0000000000430961073320568 20,85141454 > 8689 SW23 2,709344216 3,41198098 0,0006449261297639210000000 > 0,0396758555030764000000000 -0,62704052 > > > The data example comes from one experiment, where I want to know if genes are > differentially expressed. As I saw in the onlinehelp for toptable the value B > is the log odds that the gene is differentially expressed. When I now look at > the B value 20,85141454 it says that the gene orf6.2714 is in 20,85% > differentially expressed. Is it right? But how should I interpret the second > example SW23 with a negative B value? > ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
