The package does not provide or recommend MLE in this case. Only Empirical Bayes' background adjustment is implemented. You have options of using both MM intensities and probe sequence (type="fullmodel"), or only probe sequence(type="affinities") or only MM intensities for background adjustment, but they are all using EB instead of MLE. On Thu, 20 Jan 2005, Willy Wynant wrote: > Hi, > > I am working on the normalization of microarrays with the method gcrma. > I would like to know how to perform the two kinds of estimation of the > background noise : Maximum likelihood Estimator and Bayes estimator. Is > there an option which performs each of them ? > > Thank you for your help. > > Best regards, > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >