[BioC] differences among pd.mogene.1.0.st.v1, mogene10sttranscriptcluster.db and mogene10stprobeset.db

Benilton Carvalho beniltoncarvalho at gmail.com
Thu Sep 27 14:10:17 CEST 2012

Re: your question about the pd.* packages... They are build from the
official PGF / CLF / mps / NetAffx Annotation CSV files from
Affymetrix. They contain information about the geometry and physical
location locations of every single probe on the chip, in addition to
the probeset information (both for exon and transcript levels) and
biological annotation (as defined by Affymetrix).


On 27 September 2012 12:36, Javier Pérez Florido <jpflorido at gmail.com> wrote:
> Dear list,
> What are the differences between these two packages
> (mogene10sttranscriptcluster.db and mogene10stprobeset.db)?
> As far as I know, the first annotation package is used when ST arrays are
> normalized at the "core" level and the second one when data is normalized at
> the "probeset" level. Is that right?
> Another question is related to the pd.mogene.1.0.st.v1 package, which is the
> annotation package used in conjunction with the oligo package. What are the
> differences between this package and the others
> (mogene10sttranscriptcluster.db and mogene10stprobeset.db)?
> Thanks,
> Javier
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