Dear Peng, puff, I would not know a good primer for design issues and introduction to affy-chips, there is bits of it in the "Statistical Algorithms Description Document" on the page I have sent you the link for... Other than that, you'd have to browse the Affymetrix pages? Best, Sam 2009/8/4 Peng Yu <pengyu.ut@gmail.com> > Hi Sam, > > I have seen the following page that you pointed to me before I submit > the original. But I don't know which one gives the basic description > of Affy GeneChip Arrays. > http://www.affymetrix.com/support/technical/whitepapers.affx > > The affy primer document says > "We assume that the reader is already familiar with oligonucleotide > arrays and with the > design of the A ymetrix GeneChip arrays. If you are not, we recommend > the Appendix > of the A ymetrix MAS manual A ymetrix (1999, 2001)." > > > http://www.bioconductor.org/packages/release/bioc/vignettes/affy/ins t/doc/affy.pdf > > It seems that the document the affy primer refers is outdated. Would > you please let me know which document I should read? > > Regards, > Peng > > On Tue, Aug 4, 2009 at 11:21 AM, Samuel Wuest<wuests@tcd.ie> wrote: > > Dear Peng, > > > > check the Affy-Homepage, I think that's what you are looking for: > > > > http://www.affymetrix.com/support/technical/whitepapers.affx > > > > You'll find several technical manuals on this page, or alternatively on > the > > "manuals"-page... Check for example Statistical Algorithms Description > > Document (pdf, 216 KB) for an algorithm description. > > > > Please note that for some manuals you have to log-in, however, setting up > an > > account is for free. > > > > Cheers, Sam > > > > > > 2009/8/4 Peng Yu <pengyu.ut@gmail.com> > >> > >> Hi, > >> > >> The following pdf file mentioned the A ymetrix MAS manual (the first > >> and the second reference). But I don't find these manuals online. Can > >> somebody let me know how I can find it? > >> > >> > >> > http://www.bioconductor.org/packages/release/bioc/vignettes/affy/ins t/doc/affy.pdf > >> > >> Regards, > >> Peng > >> > >> _______________________________________________ > >> Bioconductor mailing list > >> Bioconductor@stat.math.ethz.ch > >> https://stat.ethz.ch/mailman/listinfo/bioconductor > >> Search the archives: > >> http://news.gmane.org/gmane.science.biology.informatics.conductor > >> > > > > > > [[alternative HTML version deleted]]