[BioC] Detection call for Hu6800

[Christian.Stratowa at vie.boehringer-ingelheim.com]

Dear Clair 

Thank you for this information, now it works fine.
BTW, I have also contacted Crispin Miller, who promised to add the missing
information for Hu6800.

Best regards
Christian

-----Original Message-----
From: Claire Wilson [mailto:ClaireWilson at PICR.man.ac.uk] 
Sent: Friday, April 01, 2005 11:04
To: Christian.Stratowa at vie.boehringer-ingelheim.com
Cc: bioconductor at stat.math.ethz.ch
Subject: RE: [BioC] Detection call for Hu6800


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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