[BioC] Exonmap - get probeset genome position

[Crispin Miller]

Hi,
 probeset.to.probe() will give you what you're after.
Crispin



On 19/02/2009 12:26, "Paul Hammer" <Paul.Hammer at p-t-p.de> wrote:

> Hi folks,
> 
> is there a way to get the exact genome position of a probeset on a
> affymetrix exon microarray chip. at the moment I do all analysis with
> the package "exonmap". i know that it is possible to get the information
> wheater a probeset is intronic, intergenic or exonic, but that is not
> enough for me:)
> 
> thanks in advance,
> paul
> 
>> sessionInfo()
> R version 2.8.0 (2008-10-20)
> x86_64-unknown-linux-gnu
> 
> locale:
> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;L
> C_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS
> =C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
> 
> attached base packages:
> [1] splines   tools     stats     graphics  grDevices utils     datasets
> [8] methods   base
> 
> other attached packages:
>  [1] exonmap_2.1.03       RMySQL_0.7-2         RColorBrewer_1.0-2
>  [4] genefilter_1.22.0    survival_2.34-1      affy_1.18.1
>  [7] preprocessCore_1.4.0 affyio_1.8.0         topGO_1.10.1
> [10] SparseM_0.79         GO.db_2.2.0          AnnotationDbi_1.2.1
> [13] RSQLite_0.7-0        DBI_0.2-4            Biobase_2.0.1
> [16] graph_1.18.1
> 
> loaded via a namespace (and not attached):
> [1] annotate_1.18.0 cluster_1.11.10
> 
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