We have a PLIER technical note that has been awaiting clearance for sometime now. I'm checking on its status. I'll post when it's up. Yes, I agree that method docs are critical. On a separate note, the PLIER SDK as it currently exists does not include any normalization processing on the front end or variance stabilization on the back end (PLIER + 16). We are considering extending this functionality, but resources have been tight. mike On 6/9/05 10:45 AM, "Adaikalavan Ramasamy" <ramasamy at="" cancer.org.uk=""> wrote: > Thank you for making the source codes available. > > While on the subject I like to ask that if there is a documentation > describing how the PLIER algorithm works. I think some sources point to > the main Affymetrix website but I was unable to find it a few weeks > back. > > Can you give me the explicit link to a document about PLIER please ? > > BTW, the white paper entitled "Statistical Algorithms Description > Document" was pretty good at explaining what MAS 5.0 did and I was > hoping that it might be updated or modified to explain PLIER. > > Thank you. > > Regards, Adai > > > On Wed, 2005-06-08 at 12:52 -0700, Mike Lelivelt wrote: >> Dear Bioconductor Community: >> >> I wanted to let everyone know that Affymetrix released the source code to >> the MASv5 statistical algorithm several months back. It is licensed under >> the GNU:GPL. You are welcome to access the code at the following URL below. >> This URL also lists our ANSI C++ file parsers under LGPL and the PLIER code >> under a GPL. If our lawyers continue to agree, we should be making more >> contributions to these code bases as well as new code bases under open >> source licenses in the future. >> >> http://www.affymetrix.com/support/developer/open_source/index.affx >> >> Also you can find many sample datasets associated with a wide variety of >> Affymetrix arrays at our developers network data resource center, as well >> as links to other sample data sets on our website as well as public data >> sets. Heres a link >> http://www.affymetrix.com/support/developer/resource_center/index.affx >> >> To receive the monthly Affymetrix developer newsletter, register at >> http://www.affymetrix.com and ensure that your profile has specified to >> receive developer network communication. >> >> Thanks for your continued support and interest, mike >> >> -- Mike Lelivelt, Ph.D., Senior Manager of Informatics Applications, >> Affymetrix, Inc. >> Mike_lelivelt at affymetrix.com, cell 608-239-6937, office 608-985-6440 msg >> sent from OS X >> >> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at stat.math.ethz.ch >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> -- Mike Lelivelt, Ph.D., Senior Manager of Informatics Applications, Affymetrix, Inc. Mike_lelivelt at affymetrix.com, cell 608-239-6937, office 608-985-6440 ? msg sent from OS X