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 at virginia.edu Voice mail: 434-982-2551, 434-924-2553 FAX: 434-982-2514
5 messages · Yongde Bao, Wolfgang Huber, Ido M. Tamir +2 more
1 day later
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 at virginia.edu Voice mail: 434-982-2551, 434-924-2553 FAX: 434-982-2514
On Wednesday 02 Apr 2003 6:43 am, Yongde Bao wrote:
Can someone point out for me where to find a package to do principal component analysis for Affy data, if existing?
http://www.stat.uni-muenchen.de/~strimmer/rexpress.html mva, multiv best wishes Ido
On Wednesday 02 Apr 2003 6:43 am, Yongde Bao wrote:
Can someone point out for me where to find a package to do principal component analysis for Affy data, if existing?
See also the function dui.pca of the ade4 package. Sincerely.
St?phane DRAY
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Biom?trie et Biologie ?volutive - Equipe "?cologie Statistique"
Universite Lyon 1 - Bat 711 - 69622 Villeurbanne CEDEX - France
Tel : 04 72 43 27 56 Fax : 04 78 89 27 19
04 72 43 27 57 E-mail : dray at biomserv.univ-lyon1.fr
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Web http://www.steph280.freesurf.fr/
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or function rda() in package vegan for that matter [fitting rda without constraints == pca] Gavin %~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% Gavin Simpson [T] +44 (0)20 7679 5522 ENSIS Research Fellow [F] +44 (0)20 7679 7565 ENSIS Ltd. & ECRC [E] gavin.simpson at ucl.ac.uk UCL Department of Geography [W] http://www.ucl.ac.uk/~ucfagls/cv/ 26 Bedford Way [W] http://www.ucl.ac.uk/~ucfagls/ London. WC1H 0AP. %~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% -----Original Message----- From: r-help-bounces at stat.math.ethz.ch [mailto:r-help-bounces at stat.math.ethz.ch] On Behalf Of Stephane Dray Sent: 04 April 2003 08:23 To: r-help at stat.math.ethz.ch Subject: Re: [R]
On Wednesday 02 Apr 2003 6:43 am, Yongde Bao wrote:
Can someone point out for me where to find a package to do principal component analysis for Affy data, if existing?
See also the function dui.pca of the ade4 package. Sincerely.
St?phane DRAY
---------------------------------------------------------------
Biom?trie et Biologie ?volutive - Equipe "?cologie Statistique"
Universite Lyon 1 - Bat 711 - 69622 Villeurbanne CEDEX - France
Tel : 04 72 43 27 56 Fax : 04 78 89 27 19
04 72 43 27 57 E-mail : dray at biomserv.univ-lyon1.fr
---------------------------------------------------------------
Web http://www.steph280.freesurf.fr/
---------------------------------------------------------------
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