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Gomez Moruno, Antonio
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30
@gomez-moruno-antonio-4604
Last seen 10.3 years ago
I got several .CEL files to do RMA using exonmap library, when i got
my list significant differentially expressed probesets and i try to
use xmapcore to map to annotation using "exonic", all i got is a NULL
vector. I used xmapcore examples and all worked perfectly, but my list
of Probesets have no correspondance in xmapcore. Anyone has any idea?
This is my session info
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] hugene10stv1cdf_2.8.0
hugene10sttranscriptcluster.db_7.0.1
[3] hugene10stprobeset.db_7.0.1 org.Hs.eg.db_2.5.0
[5] RSQLite_0.9-4 AnnotationDbi_1.14.1
[7] limma_3.8.1 plier_1.22.0
[9] exon.pmcdf_1.1 xmapcore_1.6.0
[11] IRanges_1.10.0 RMySQL_0.7-5
[13] DBI_0.2-5 RColorBrewer_1.0-2
[15] genefilter_1.34.0 affy_1.30.0
[17] Biobase_2.12.1 exonmap_2.0.03
loaded via a namespace (and not attached):
[1] affyio_1.20.0 annotate_1.30.0 digest_0.4.2
[4] preprocessCore_1.14.0 splines_2.13.0
[7] survival_2.36-8 tools_2.13.0 xtable_1.5-6
this is my raw data
AffyBatch object
size of arrays=1050x1050 features (21 kb)
cdf=exon.pmcdf (1411189 affyids)
number of samples=12
number of genes=1411189
annotation=hugene10stv1
notes=
Thanks in advance