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D C wrote: > Is there a way to get just.gcrma to work with a custom cdf file? I > checked the available documentation and searched the archives but did > not find anything obvious. A more recent version of gcrma will allow you to specify an alternative cdf in justGCRMA(). From the help file: Arguments: ...: file names separated by comma. [snip] cdfname: Used to specify the name of an alternative cdf package. If set to 'NULL', the usual cdf package based on Affymetrix' mappings will be used. Note that the name should not include the 'cdf' on the end, and that the corresponding probe package is also required to be installed. If either package is missing an error will result. Best, Jim > > I already tried ReadAffy with gcrma and got a memory error: > > data <- ReadAffy() data at cdfName <- "HSFocus_HS_ENTREZG_6" gcrma(data) > Thanks in advance for your help. > > DC > > --------------------------------- > > [[alternative HTML version deleted]] > > _______________________________________________ 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 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.