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Hi all, I've been trying to figure out how to superimpose a histogram on a biplot that shows the relative contribution of each axis. I have been using the NIPALS function (http://biomserv.univ-lyon1.fr/~dray/ files/softwares/nipals.R) to run principal component analyses. Here is a toy example. source("http://biomserv.univ-lyon1.fr/~dray/files/softwares/nipals.R") mat=matrix(runif(100,0,1), ncol=10, nrow=10) nipmat=nipals(mat, nf=9) scatter(nipmat) In the plot generat...

A L E R T E V I R U S Notre antivirus a d?tect? le VIRUS "W32/Sobig.e at MM" dans votre courrier destin? ? : -> dray at biomserv.univ-lyon1.fr Nous refusons de le transmettre. Nous vous conseillons de d?contaminer votre poste de travail. Pour votre information, vous trouverez ci-dessous les entetes de votre message Pour des informations sur ce virus et comment l'?liminer:...

...mprove the script. I wonder if someone could help me to obtain an efficient (i.e. fastest) procedure to compute the power of a matrix. Please note that in this example, M^n could be a matrix of 0, but it is not the case with my real data. Thanks in advances, Cheers. -- St?phane DRAY (dray at biomserv.univ-lyon1.fr ) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - Lyon I 43, Bd du 11 Novembre 1918, 69622 Villeurbanne Cedex, France Tel: 33 4 72 43 27 57 Fax: 33 4 72 43 13 88 http://biomserv.univ-lyon1.fr/~dray/

...SiteSearch("**") A search query has been submitted to http://search.r-project.org The results page should open in your browser shortly # --> Too many hits Where can I find the documentation about the ** operator? Thanks for any hint, Jean Lobry -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 12 87 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

...win8.7.0 locale: fr_FR.UTF-8/fr_FR.UTF-8/fr_FR.UTF-8/C/fr_FR.UTF-8/fr_FR.UTF-8 attached base packages: [1] "methods" "stats" "graphics" "grDevices" "utils" "datasets" [7] "base" -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

...le? Best, Jean > sessionInfo() R version 2.6.2 (2008-02-08) i386-apple-darwin8.10.1 locale: C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] rcompgen_0.1-17 -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

...-------------------------------------- with: unix$ pdflatex tex.tex this is what I get: http://pbil.univ-lyon1.fr/members/lobry/tmp/tex.pdf The PDF version of the R-Logo I'm using is here: http://pbil.univ-lyon1.fr/members/lobry/tmp/Rlogo.pdf HTH, Jean -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

...-------------------------------------- with: unix$ pdflatex tex.tex this is what I get: http://pbil.univ-lyon1.fr/members/lobry/tmp/tex.pdf The PDF version of the R-Logo I'm using is here: http://pbil.univ-lyon1.fr/members/lobry/tmp/Rlogo.pdf HTH, Jean -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

Full_Name: Jori M?ntysalo Version: 2.3.1 OS: Linux, GNU/Debian stable Submission from: (NULL) (81.197.171.182) I said ./configure --with-readline=no --with-x=no make make install and everything works except that /usr/local/lib/R/etc/ldpaths was not readable as normal user.

All, Recently I ran across a URL documenting published research using R: http://www.cgd.ucar.edu/ccr/ammann/millennium/CODES_MBH.html A note on the site indicates that the code is being revised. The code and data are provided, so that one could reproduce the results without having to buy a proprietary software program. In poking around the R website it is clear that a lot of thought has gone

...urs Best, Jean > sessionInfo() R version 2.6.2 (2008-02-08) i386-apple-darwin8.10.1 locale: C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] rcompgen_0.1-17 -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

Hello list, I have a problem ... and do not know how to solve it. I would like create a function that estimate the quality of the fit of different functions with different values of parameters. This problem is related to the following one: I would like to create a function "evaluatemyfunction" which evaluate a function f for different values of parameters. For instance, if

...sion _ platform powerpc-apple-darwin7.9.0 arch powerpc os darwin7.9.0 system powerpc, darwin7.9.0 status major 2 minor 2.0 year 2005 month 10 day 06 svn rev 35749 language R Any hint would be greatly appreciated, Jean -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 12 87 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

I get tables with millions of rows. For plotting to a screen-size jpg, obviously just about 1000 points are enough. Instead of feeding plot() the original millions of rows, I'd rather shrink the original dataframe, using some kind of the following interpolation: -- split dataframe into chunks of N rows each, e.g. 1000 rows each -- compute average for each column -- issue one new row

...ease tell me where I got wrong). Regards, Thibaut. -- ###################################### Thibaut JOMBART CNRS UMR 5558 - Laboratoire de Biom?trie et Biologie Evolutive Universite Lyon 1 43 bd du 11 novembre 1918 69622 Villeurbanne Cedex T?l. : 04.72.43.29.35 Fax : 04.72.43.13.88 jombart at biomserv.univ-lyon1.fr http://biomserv.univ-lyon1.fr/sitelabo/pageperso.php?id_personne=178

...e 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 --------------------------------------------------------------- ADE-4 http://pbil.univ-lyon1.fr/ADE-4/ADE-4F.html --------------------------------------------------------------- -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-help maili...

...t; Jean Thanks to all who replied either privately or on the list. I have summarized the answers at the beginning of the following document: http://pbil.univ-lyon1.fr/members/lobry/R/diaposcam.pdf Let me know if you have more eatable examples. Best, Jean -- Jean R. Lobry (lobry at biomserv.univ-lyon1.fr) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - LYON I, 43 Bd 11/11/1918, F-69622 VILLEURBANNE CEDEX, FRANCE allo : +33 472 43 27 56 fax : +33 472 43 13 88 http://pbil.univ-lyon1.fr/members/lobry/

...--------------------------------------------------- Bonenfant Christophe Laboratoire de Biom??trie et Biologie Evolutive UMR CNRS 5558 - Universit?? Claude Bernard Lyon 1 43, Boulevard du 11 Novembre 1918 F-69622 Villeurbanne Cedex T??l: 04-72-44-81-11 Mobile: 06-62-11-20-00 Courriel: bonenfan at biomserv.univ-lyon1.fr In Tartiflette we trust... ------------------------------------------------------------------------ ------------------------------------------------------------------------ Bonenfant Christophe Laboratoire de Biom??trie et Biologie Evolutive UMR CNRS 5558 - Universit?? Claude Bernar...

...--------------------------------------------------- Bonenfant Christophe Laboratoire de Biom??trie et Biologie Evolutive UMR CNRS 5558 - Universit?? Claude Bernard Lyon 1 43, Boulevard du 11 Novembre 1918 F-69622 Villeurbanne Cedex T??l: 04-72-44-81-11 Mobile: 06-62-11-20-00 Courriel: bonenfan at biomserv.univ-lyon1.fr In Tartiflette we trust... ------------------------------------------------------------------------ ------------------------------------------------------------------------ Bonenfant Christophe Laboratoire de Biom??trie et Biologie Evolutive UMR CNRS 5558 - Universit?? Claude Bernar...

...which is equal for these two cases to 100. Is there some explanation for this choice ? I would think that the computation of CI would also take into account the number of pairs of non-NA values. Is there some references on the topic ? Thanks in advance, Sincerely. -- St?phane DRAY (dray at biomserv.univ-lyon1.fr ) Laboratoire BBE-CNRS-UMR-5558, Univ. C. Bernard - Lyon I 43, Bd du 11 Novembre 1918, 69622 Villeurbanne Cedex, France Tel: 33 4 72 43 27 57 Fax: 33 4 72 43 13 88 http://biomserv.univ-lyon1.fr/~dray/