Dear Bioconductor community, We are using a custom expression array design from affy. We were able to use their cdf file for bioconductor analysis with RMA, but GC-RMA does not seem to function because of missing probe sequence information. We have the probe information in a text file. Is there a guide to loading the probe sequence information for GC-RMA analysis? Best, -Igor

You want the matchprobes package. See ?makeProbePackage. Best, Jim iromashk at student.umass.edu wrote: > Dear Bioconductor community, > We are using a custom expression array design from affy. We were able to use > their cdf file for bioconductor analysis with RMA, but GC-RMA does not seem to > function because of missing probe sequence information. We have the probe > information in a text file. Is there a guide to loading the probe sequence > information for GC-RMA analysis? > > Best, > -Igor > > _______________________________________________ > 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