[BioC] Detection call for Hu6800

[Claire Wilson]

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 at stat.math.ethz.ch 
> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of 
> Christian.Stratowa at vie.boehringer-ingelheim.com
> Sent: 30 March 2005 09:08
> To: bioconductor at 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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