On 2020-12-11 21:04 +0500, Anas Jamshed wrote: > On Fri, Dec 11, 2020 at 9:03 PM Anas Jamshed wrote: > > On Fri, Dec 11, 2020 at 8:37 PM Rasmus Liland wrote: > > > > > > I think that's too many unspecific lines > > > and too large files directly here on > > > email (24MiB!). > > > > > > Would you please narrow down your > > > question. > > > > E-MTAB is an original sample data file and another one is normalized data > > file but I don't know why I get just one gene(up reg) when I apply top > > table and decide test function > > results<-decideTests(fit3,adjust.method="fdr",p=0.05) > > results > > summary(results) > > cont.matrix <- makeContrasts(eset, levels=design) > > fit.cont <- contrasts.fit(fit, cont.matrix) > > fit.cont > > fit.cont<- eBayes(fit.cont) > > fit.cont > > results<-decideTests(fit.cont,adjust.method="fdr",p=0.001) > > [image: image.png]
Say, how do I create fit3, eset, design, etc. ... R ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see 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.
