Hi everybody, This may be a R question, I am going to ask here anyway. I extract the pm intensities of a ReadAffy object test: test.intensity=pm(test) test.intensity is a matrix with rownames of qualifier#, where # is a probe number. For example, mygene1, where mygene is the qualifier and 1 is the first probe for that probe set with qualifier "mygene". I can access all intensities by test.intensity["mygene1",] My question is: is there way to extract all probe intensities for "mygene"? can I use wild cards here? thanks -hui ***************************** Hui Wang Bioinformatics, Affymetrix Inc Phone: 408-731-5668(Santa Clara) 510-428-8546(Emeryville) ***************************** [[alternate HTML version deleted]]

Is this what you want? tt <- matrix(1:20, ncol = 4) rownames(tt) <- c("mygene1", "mygene2", "somthing1", "mygene3", "somthing2") tt[grep("mygene*", rownames(tt)),] >From: "Wang, Hui" <hui_wang@affymetrix.com> >To: "'bioconductor@stat.math.ethz.ch'" <bioconductor@stat.math.ethz.ch> >Date: Thu, 13 Mar 2003 18:54:53 -0800 >MIME-Version: 1.0 >X-Virus-Scanned: by amavisd-milter (http://amavis.org/) >X-Virus-Scanned: by amavisd-milter (http://amavis.org/) >X-Spam-Status: No, hits=0.9 required=5.0 tests=EXCHANGE_SERVER,MIME_NULL_BLOCK,SPAM_PHRASE_03_05 version=2.43 >X-Spam-Level: >Content-Disposition: inline >Content-Transfer-Encoding: 7bit >Subject: [BioC] extracting probe intensities from ReadAffy object >X-BeenThere: bioconductor@stat.math.ethz.ch >X-Mailman-Version: 2.1.1 >List-Id: The Bioconductor Project Mailing List <bioconductor.stat.math.ethz.ch> >List-Help: <mailto:bioconductor- request@stat.math.ethz.ch?subject="help"> >List-Post: <mailto:bioconductor@stat.math.ethz.ch> >List-Subscribe: <https: www.stat.math.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=subscribe> >List-Archive: <https: www.stat.math.ethz.ch="" pipermail="" bioconductor=""> >List-Unsubscribe: <https: www.stat.math.ethz.ch="" mailman="" listinfo="" bioconductor="">, <mailto:bioconductor-request@stat.math.ethz.ch?subject=unsubscribe> > >Hi everybody, > >This may be a R question, I am going to ask here anyway. > >I extract the pm intensities of a ReadAffy object test: >test.intensity=pm(test) > >test.intensity is a matrix with rownames of qualifier#, where # is a probe >number. For example, mygene1, where mygene is the qualifier and 1 is the >first probe for that probe set with qualifier "mygene". I can access all >intensities by test.intensity["mygene1",] > >My question is: > >is there way to extract all probe intensities for "mygene"? can I use wild >cards here? > > >thanks > >-hui >***************************** >Hui Wang >Bioinformatics, Affymetrix Inc >Phone: 408-731-5668(Santa Clara) > 510-428-8546(Emeryville) >***************************** > > > [[alternate HTML version deleted]] > >_______________________________________________ >Bioconductor mailing list >Bioconductor@stat.math.ethz.ch >https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor Jianhua Zhang Department of Biostatistics Dana-Farber Cancer Institute 44 Binney Street Boston, MA 02115-6084