[BioC] About CLAC package

[affy snp]

Robert, thank you very much for brining this to my attention. Appreciated.

Sincerely,
      Allen Shore

On Nov 10, 2007 1:50 PM, Robert Gentleman <rgentlem at fhcrc.org> wrote:
> Hi,
>    Please read the posting guide, that is perhaps the best advice that
> can be given which will tell you among other things to provide the
> output of sessionInfo, and to provide a reproducible example.
>
> The second best advice is to include a signature that identifies you.
> There are a number of people who will not respond to anonymous emails,
> so if you want their help you will need to identify yourself.
>
>   best wishes
>     Robert
>
>
> affy snp wrote:
> > Dear list,
> >
> >
> > I was trying CLAC to analyze Affy SNP 250K array to call gain and
> > loss. The data set consists of 238304 rows (snp probes) and 243
> > columns (samples).
> >
> > I tried clac.preparenormal.R() first and got an error message which is:
> >
> >> NormalResult<-clac.preparenormal.R(cghlog2[,1:47], cghlog2[,48:243], Normal.Type=rep(0,196), chromosome.number=B[,1], nucleotide.position=B[,2], windowsize=5, targetFDR=0.01, chromosomeOption=FALSE)
> > Error in Summary.factor(c(1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L,  :
> >   max not meaningful for factors
> >
> > Do you have any idea about this? I am new to R and bioconductor so any help
> > will be appreciated!
> >
> > Sincerely,
> >        Allen
> >
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>
> --
> Robert Gentleman, PhD
> Program in Computational Biology
> Division of Public Health Sciences
> Fred Hutchinson Cancer Research Center
> 1100 Fairview Ave. N, M2-B876
> PO Box 19024
> Seattle, Washington 98109-1024
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> rgentlem at fhcrc.org
>