Entering edit mode
Claire Wilson
▴
280
@claire-wilson-273
Last seen 9.6 years ago
Hi Christian,
This error arises because simpleaffy doesn't know what the alpha1 and
alpha2 values are for the Hu6800 chips and you need to supply them
with
the call to detection.p.val
pv17 <- detection.p.val(M17, alpha1=X,alpha2=Y)
Hope this helps
Claire
> -----Original Message-----
> From: bioconductor-bounces@stat.math.ethz.ch
> [mailto:bioconductor-bounces@stat.math.ethz.ch] On Behalf Of
> Christian.Stratowa@vie.boehringer-ingelheim.com
> Sent: 30 March 2005 09:08
> To: bioconductor@stat.math.ethz.ch
> Subject: [BioC] Detection call for Hu6800
>
> Dear BioC people
>
> Could it be that neither detection.p.value (simpleaffy) nor
> mas5calls (affy)
> work with Hu6800 chips?
>
> I get the following errors:
>
> > M17 <- ReadAffy(filenames=c("M17.cel"))
> > dpv17 <- detection.p.val(M17)
> Error in if (alpha1 < 0) { : missing value where TRUE/FALSE needed
> > dpv17 <- mas5calls(M17)
> Getting probe level data...
> Computing p-values
> Making P/M/A Calls
> Error in if (y < alpha1) { : missing value where TRUE/FALSE needed
> > dpv17 <- mas5calls(M17,ignore.saturated=F)
> Getting probe level data...
> Computing p-values
> Making P/M/A Calls
> Error in if (y < alpha1) { : missing value where TRUE/FALSE needed
> >
>
> Best regards
> Christian Stratowa
>
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