[BioC] affy 10k

[Vincent Carey]

My recollection is that we did not build for this chip because it was
not in wide use.  You should be able to build a pd.mapping* package
using the pdInfoBuilder package.

On Mon, Nov 2, 2009 at 9:22 AM, Peter Robinson
<peter.robinson at charite.de> wrote:
> Dear Listers,
>
> I would like to use the oligo package to do genotype calls for the
> affymetrix 10K chip. For some reason, I have not been able to find a package
> like "pd.mapping250k.sty", which is used for the 250K/Sty chip.
>
> In other words, I had used this code for the 250k chip:
>
>>biocLite("pd.mapping250k.sty")
>
>
>
>>library("oligo")
>>outputDir <- file.path(getwd(), "myGenotype")
>>fullFilenames <- list.files("myDirectory",pattern="CEL$",
>> ignore.case="TRUE",full.names=TRUE)
> crlmm(fullFilenames, outputDir, verbose = TRUE)
>
>
> and I am not sure what annotation file to use for the 10K (if in fact there
> is one). Thanks for any tips!
> -Peter
>
>
> --
> Dr. med. Peter N. Robinson, MSc.
> Institut für Medizinische Genetik
> Universitätsklinikum Charite
> Humboldt-Universität
> Augustenburger Platz 1
> 13353 Berlin
> Germany
> voice: 49-30-450569124
> fax:   49-30-450569915
> email: peter.robinson at charite.de
> http://compbio.charite.de/
> http://www.human-phenotype-ontology.org
>
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