[R] (no subject)

[Rasmus Liland]

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