[BioC] Exonmap - get probeset genome position

Paul Hammer Paul.Hammer at p-t-p.de
Thu Feb 19 13:26:45 CET 2009


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;LC_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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