If you have a computer cluster you also can use the package "affyPara". Then you have a very fast solution for large numbers of microarrays. Best Markus Wei,Caimiao wrote: > Dear all, > > I can use justRMA to read in 200+ U133_2 .Cel files and normalize at once on a sparc-sun-solaris2.9. with R version 2.7.0 (2008-04-22). > > I thought justMAS would be able to do similar task. But to use justMAS, we need to have an affybatch object first. read.affybatch fails with 100 arrays (can not allocate enough memory). > > are there other options to normalize 200+ U133-2 arrays all at once by MAS5? > > Thanks! > > Caimiao > > _______________________________________________ > 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 -- Dipl.-Tech. Math. Markus Schmidberger Ludwig-Maximilians-Universit?t M?nchen IBE - Institut f?r medizinische Informationsverarbeitung, Biometrie und Epidemiologie Marchioninistr. 15, D-81377 Muenchen URL: http://www.ibe.med.uni-muenchen.de Mail: Markus.Schmidberger [at] ibe.med.uni-muenchen.de Tel: +49 (089) 7095 - 4599

Yes, you could for example use package "xps" available from BioConductor, or alternatively package "aroma.affymetrix". Regards Christian _._._._._._._._._._._._._._._._._._ C.h.r.i.s.t.i.a.n S.t.r.a.t.o.w.a V.i.e.n.n.a A.u.s.t.r.i.a e.m.a.i.l: cstrato at aon.at _._._._._._._._._._._._._._._._._._ Wei,Caimiao wrote: > Dear all, > > I can use justRMA to read in 200+ U133_2 .Cel files and normalize at once on a sparc-sun-solaris2.9. with R version 2.7.0 (2008-04-22). > > I thought justMAS would be able to do similar task. But to use justMAS, we need to have an affybatch object first. read.affybatch fails with 100 arrays (can not allocate enough memory). > > are there other options to normalize 200+ U133-2 arrays all at once by MAS5? > > Thanks! > > Caimiao > > _______________________________________________ > 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 > > >