Or better yet, just use gcrma(). There is an argument for normalization (set to TRUE by default), and if you don't want things logged, just 'un-log' them. For instance mydata <- gcrma(abatch, normalize = FALSE) exprs(mydata) <- 2^exprs(mydata) Best, Jim Naomi Altman wrote: > Have a look at expresso. It allows you control over all aspects of the > normalization and summarization process. > > --Naomi > > At 12:17 PM 7/14/2008, Niels H?gslund wrote: >> Dear list, >> >> Can anybody suggest a way in which I can get background-corrected and >> summarized (gcrma style), but unnormalized and unlogged data from a >> batch of CEL files? >> >> ....apologies if I?m overlooking something obvious here! >> >> Thanks in advance, >> >> Niels >> >> >> >> >> Niels H?gslund >> BiRC -Bioinformatics Research Center >> H?egh-Guldbergs Gade 10 >> DK-8000 ?rhus C >> Denmark >> phone: +45 89423100 >> mail: nj at birc.au.dk >> >> _______________________________________________ >> 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 > > Naomi S. Altman 814-865-3791 (voice) > Associate Professor > Dept. of Statistics 814-863-7114 (fax) > Penn State University 814-865-1348 (Statistics) > University Park, PA 16802-2111 > > _______________________________________________ > 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