[BioC] MOE430 A and B - bug?

[Jose Duarte]

I am getting exactly the same error in aafGO:

> a<-aafGO(probeids,"moe430a")
Error in exists(num, GOBPID2TERM) : Object "GOBPID2TERM" not found

This is when using version 1.5.0 of the moe430a metadata package. In a
different machine with version 1.4.0 this works alright. annaffy version
is 1.0.3 in both.

Thanks

Jose


On Mon, 2004-03-15 at 17:04, Aedin wrote:
> Hi
> I am having problems using annaffy GO (aafGO) annotations on these chips? I
> have updated my chip annotation files, and GO library, but still get
> 
> > a<-aafGO(rownames(chipA), "moe430a")
> Error in exists(num, GOBPID2TERM) : Object "GOBPID2TERM" not found
> 
> Thanks for your help,
> Aedin
> 
> -----Original Message-----
> From: bioconductor-bounces+aedin.culhane=ucd.ie at stat.math.ethz.ch
> [mailto:bioconductor-bounces+aedin.culhane=ucd.ie at stat.math.ethz.ch]On
> Behalf Of Ben Bolstad
> Sent: 15 March 2004 14:17
> To: peter robinson
> Cc: bioconductor at stat.math.ethz.ch
> Subject: Re: [BioC] MOE430 A and B
> 
> 
> you need to read in the type A and type B files into separate affybatch
> objects.
> 
> eg
> 
> my.Data.A <-
> ReadAffy(filenames=c("blahA1.cel","blahA2.cel","blahA3.cel"))
> 
> my.Data.B <-
> ReadAffy(filenames=c("blahB1.cel","blahB2.cel","blahB3.cel"))
> 
> Ben
> 
> 
> 
> 
> 
> 
> On Mon, 2004-03-15 at 04:20, peter robinson wrote:
> > Dear List members,
> >
> > I would like to use the affy package to analyze data from MOE430A and -B
> > chips. I tried to read in data from both types of chips at once using
> > data <- ReadAffy(widget=T)
> > and then reading in 3 MOE430A and 3 MOE430B CEL files.
> > I got the error message:
> > "Cel file does not seem to beo of 430MOEA type" when the script tried to
> input
> > data from a 430MOEB Cel file. I had imported the CDF and annotation
> packages
> > for both types of chip.
> > I am using R 1.81, Bioconductor 1.3 on a SuSe 8.1 linux system.
> >
> > Thanks for any advice/tips!
> >
> > Peter
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor at stat.math.ethz.ch
> > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> --
> Ben Bolstad <bolstad at stat.berkeley.edu>
> http://www.stat.berkeley.edu/~bolstad
> 
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> 
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-- 
Jose Duarte <jose.duarte at anat.ox.ac.uk>