I don't think you can. The exonmap package uses modified cdfs that have all the background and control probesets removed. Best, Jim shirley zhang wrote: > Hi Jim, > > Thanks for your help. Can you also tell me how to get all of the > background probe and positive/negative control probe data using the > exonmap package? > > Shirley > > On Mon, Mar 17, 2008 at 10:14 AM, James W. MacDonald > <jmacdon at="" med.umich.edu=""> wrote: >> Hi Shirley, >> >> You can get the probe-level data using the exonmap package. >> >> Best, >> >> Jim >> >> >> >> >> shirley zhang wrote: >>> Dear Bioconductor, >>> >>> I usually obtain exon-level/gene-level signal using Plier/RMA >>> implemented in Affymetrix's Expression Console, however there is no >>> way to get probe level intensity from it. Does anybody know how to get >>> probe level intensity from Affymetrix Exon Array platform? >>> >>> Thanks, >>> Shirley >>> >>> _______________________________________________ >>> Bioconductor mailing list >>> Bioconductor at stat.math.ethz.ch >>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >> -- >> James W. MacDonald, M.S. >> Biostatistician >> Affymetrix and cDNA Microarray Core >> University of Michigan Cancer Center >> 1500 E. Medical Center Drive >> 7410 CCGC >> Ann Arbor MI 48109 >> 734-647-5623 >> -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623