Can someone point out for me where to find a package to do principal component analysis for Affy data, if existing? Thanks, Yongde Yongde Bao, Ph.D Biomolecular Research Facility Department of Microbiology University of Virginia School of Medicine Charlottesville, VA 22908 E-mail: yb8d@virginia.edu Voice mail: 434-982-2551, 434-924-2553 FAX: 434-982-2514

Hi Yongde, you do not need a special version of PCA for Affy data, a generic implementation, e.g. mva::princomp, should do. Best regards Wolfgang ------------------------------------- Wolfgang Huber http://www.dkfz.de/mga/whuber Division of Molecular Genome Analysis German Cancer Research Center Heidelberg, Germany ------------------------------------- On Tue, 1 Apr 2003, Yongde Bao wrote: > Can someone point out for me where to find a package to do principal > component analysis for Affy data, if existing? > Thanks, Yongde > > Yongde Bao, Ph.D > Biomolecular Research Facility > Department of Microbiology > University of Virginia School of Medicine > Charlottesville, VA 22908 > > E-mail: yb8d@virginia.edu > Voice mail: 434-982-2551, 434-924-2553 > FAX: 434-982-2514 >

Yongde: PCA can be done using the princomp function in the mva package in R. Take a look at http://stat.ethz.ch/R-alpha/R-patched/library/mva/html/princomp.html . Thanks Shyam -----Original Message----- From: Yongde Bao [mailto:yb8d@virginia.edu] Sent: Tuesday, April 01, 2003 11:44 PM To: r-help@stat.math.ethz.ch; bioconductor@stat.math.ethz.ch Subject: [BioC] Can someone point out for me where to find a package to do principal component analysis for Affy data, if existing? Thanks, Yongde Yongde Bao, Ph.D Biomolecular Research Facility Department of Microbiology University of Virginia School of Medicine Charlottesville, VA 22908 E-mail: yb8d@virginia.edu Voice mail: 434-982-2551, 434-924-2553 FAX: 434-982-2514 _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor

Hello, Following an e-mail from Sandrine, I tried to get the Golub data (the 3051*38 matrix) from the multtest, without any success.. Can you please give me more indications to get them!!! All the best Ali Gannoun ----------------------------------------------------------------- Dr Ali Gannoun Howard University, National Human Genome Center Statistical Genetics and Bioinformatics Unit 2216 Sixth Street, N.W. Washington, D.C. 20059 USA e-mail: agannoun@howard.edu Phone: 202 806 43 64 Fax : 202 265 08 71 ----------------------------------------------------------------- [[alternate HTML version deleted]]