[BioC] edgeR: calcNormFactors

[Naomi Altman]

Thanks.  I think you are right.

Thanks to Neel and João,

--Naomi

At 03:33 PM 3/11/2011, Neel Aluru wrote:
>Hi Naomi,
>
>I think this error is associated with old 
>version of edgeR.  Try upgrading to the latest 
>version of edgeR. That's how I was able to get rid of it.
>
>Neel
>
>On Mar 11, 2011, at 3:24 PM, João Moura wrote:
>
> > Hi Naomi,
> >
> > just use as.matrix(TotalReads) instead ;)
> >
> > Cheers
> >
> > On Fri, Mar 11, 2011 at 8:38 PM, Naomi Altman <naomi at stat.psu.edu> wrote:
> >
> >> It looks like calcNormFactors wants a matrix, not a DGEList.  Did I do
> >> something wrong?
> >>
> >> d=DGEList(counts=TotalReads, group=treatments,genes=rownames(TotalReads))
> >>
> >> Calculating library sizes from column totals.
> >>
> >> dNorm=calcNormFactors(d)
> >>
> >> Error in calcNormFactors(d) : 'dataMatrix' needs to be a matrix
> >>
> >> Naomi
> >>
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> >
> >
> >
> > --
> > João Moura
> >
> >       [[alternative HTML version deleted]]
> >
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>Neel Aluru
>Postdoctoral Scholar
>Biology Department
>Woods Hole Oceanographic Institution
>Woods Hole, MA 02543
>USA
>508-289-3607
>
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