I'm a little unclear on how to extract normalized intensities from a marrayNorm object. The intensities in maA appear to be the original un-normalized intensities. There are normalization factors in maMloc and maMscale, but I don't know how to apply them. The maMscale look like multiplicative values while the maMloc look additive. Thanks. Gene Cutler Research Investigator Bioinformatics Amgen SF

Hi Gene, maM extrat the normalized log-ratios. If you would like to obtain normalized single channel log-intensities. You can simply solve the equations for R and G. M = (R - G) A = (R + G) / 2 Jean On Fri, 24 Sep 2004, Gene Cutler wrote: > I'm a little unclear on how to extract normalized intensities from a > marrayNorm object. The intensities in maA appear to be the original > un-normalized intensities. There are normalization factors in maMloc > and maMscale, but I don't know how to apply them. The maMscale look > like multiplicative values while the maMloc look additive. > > Thanks. > > > > Gene Cutler > Research Investigator > Bioinformatics > Amgen SF > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >