Hi All, I wonder if anyone could point to me where to find the axillary files, such as .db, .cdf, .probe etc, for Affy's rat st gene array 2.0. Best, Yongde -- Yongde Bao DNA Sciences Core Dept. of Microbiology, Immunology, and Cancer Biology UVA [[alternative HTML version deleted]]

Hi Yongde, You will want to be using R-3.0.1 and either the oligo or xps package. If you use oligo, then you will automatically get all but the annotation .db file downloaded automatically. Depending on the way you summarize the probesets (at the transcript or exon level), you will then want either the ragene20sttranscriptcluster.db or ragene20stprobeset.db packages, both of which can be installed using biocLite(). Best, Jim On 6/12/2013 1:36 PM, YBao wrote: > Hi All, > > I wonder if anyone could point to me where to find the axillary files, such > as .db, .cdf, .probe etc, for Affy's rat st gene array 2.0. > > Best, > > Yongde > -- James W. MacDonald, M.S. Biostatistician University of Washington Environmental and Occupational Health Sciences 4225 Roosevelt Way NE, # 100 Seattle WA 98105-6099

Yongde, Here: http://www.bioconductor.org/packages/release/data/annotation/ We should chat off-list. Stephen On Wed, Jun 12, 2013 at 1:36 PM, YBao <yb8d at="" virginia.edu=""> wrote: > > Hi All, > > I wonder if anyone could point to me where to find the axillary files, such > as .db, .cdf, .probe etc, for Affy's rat st gene array 2.0. > > Best, > > Yongde > > -- > Yongde Bao > DNA Sciences Core > Dept. of Microbiology, Immunology, > and Cancer Biology > UVA > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor