Hi, I am using a custom Affymetrix array which contains GC bins. I would like to implement a probe-level analysis using the GC bin probes. How do I access the GC probes? Lana Schaffer Biostatistics/Informatics The Scripps Research Institute DNA Array Core Facility La Jolla, CA 92037 (858) 784-2263 (858) 784-2994 schaffer at scripps.edu

Did you get pgf and bgp files for the chip? There is no published method of processing them yet in BioC, I'm afraid Unless I missed something recently... Your GC-probes are the background, right? Then chances are they are also in the CDF in probesets with unusual type (like in the exon chip CDF) good luck :) Michal Lana Schaffer wrote: > Hi, > I am using a custom Affymetrix array which contains GC > bins. I would like to implement a probe-level analysis > using the GC bin probes. How do I access the GC probes? > > Lana Schaffer > Biostatistics/Informatics > The Scripps Research Institute > DNA Array Core Facility > La Jolla, CA 92037 > (858) 784-2263 > (858) 784-2994 > schaffer at scripps.edu > > _______________________________________________ > 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 > >