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Hi all, Does anyone know of a function that return the best lambda in box-cox transformation? many thanks for any help. -- Cristiane S. Rocha Laboratorio Genoma Funcional - Bioinform?tica Centro de Biologia Molecular e Engenharia Genetica Universidade Estadual de Campinas Campinas - SP - Brasil Tel:(19)3788-1119

...ps:// .... I call the library function setting the path to the library directory: >library(som, lib.loc="/usr/local/lib/R/library/") The script runs fine in shell mode, so I have no idea of what is wrong. Thank's in advance -- Cristiane S. Rocha Laboratorio Genoma Funcional - Bioinform??tica Centro de Biologia Molecular e Engenharia Genetica Universidade Estadual de Campinas Campinas - SP - Brasil

...uot; package with the command: install.packages("rattle", dependencies=TRUE), I got Warning message: Dependency 'Design' is not available Is this warning serious? How to avoid this warning? Thanks _____________________________________________ Dr.Ruixin ZHU Shanghai Center for Bioinformation Technology rxzhu@scbit.org zhurx@mail.sioc.ac.cn 86-21-13040647832 [[alternative HTML version deleted]]

...list for packages about data/text mining. And give me an example of text mining with R (any relating materials will be highly appreciated), because a vignette written by Ingo Feinerer seems too concise for me. Thanks _____________________________________________ Dr.Ruixin ZHU Shanghai Center for Bioinformation Technology rxzhu@scbit.org zhurx@mail.sioc.ac.cn 86-21-13040647832 [[alternative HTML version deleted]]

Dear R-users, It seems that install.packages( ) doesn't work to RMySQL package. Would anybody have the experience of that? Thanks _____________________________________________ Dr.Ruixin ZHU Shanghai Center for Bioinformation Technology rxzhu@scbit.org zhurx@mail.sioc.ac.cn 86-21-13040647832 [[alternative HTML version deleted]]

...h (the condition must have the same number of elements as races2000 has columns), but it is probably not the result that you want! See further pp.320-321 of the DAAG book. John Maindonald email: john.maindonald at anu.edu.au phone : +61 2 (6125)3473 fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200. On 28 Feb 2005, at 10:07 PM, r-help-request at stat.math.ethz.ch wrote: > From: Clint Harshaw <charshaw at presby.edu> > Date: 28 February 2005 1:08:36...

...Ò²»µ½¶ÔÏó'Forbes2000\\$'¡£ÇëÈ·¶¨¶ÔÏóÊÇ·ñ´æÔÚ£¬²¢ÕýÈ·µØд³öËüµÄÃû³ÆºÍ· ¾¶¡£" I do can find Forbes2000.xls in directory, C:\Program Files\R\R-2.5.0. Would anybody help me out? Thanks for any suggestions! _____________________________________________ Dr.Ruixin ZHU Shanghai Center for Bioinformation Technology rxzhu@scbit.org zhurx@mail.sioc.ac.cn 86-21-13040647832 [[alternative HTML version deleted]]

...ues are to be substituted for a and b? i.e., the first element of the legend argument to legend() becomes, effectively: substitute(y == a * x^b, list(a = B[1], b=B[2])) John Maindonald email: john.maindonald at anu.edu.au phone : +61 2 (6125)3473 fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200.

...595.23, aic = 1198.46 Warning message: some AR parameters were fixed: setting transform.pars = FALSE in: arima(avrain, order = c(0, 0, 4), seasonal = list(order = c(0, John Maindonald email: john.maindonald at anu.edu.au phone : +61 2 (6125)3473 fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200.

...irectory ERROR: compilation failed for package 'Rmpi' ** Removing '/usr/local/lib64/R/library/Rmpi' May you give me some advice Best EBH -------------------------------------------------------- Emiliano Barreto_Hernandez Profesor Asociado Colombia EMBnet Node Manager Centro de Bioinform?tica Instituto de Biotecnolog?a - Universidad Nacional de Colombia Edificio Manuel Ancizar Bogot? - Colombia Tel +57 3165000 ext 16956 Fax +571 3165415 ebarretoh at unal.edu.co http://bioinf.ibun.unal.edu.co http://www.co.embnet.org

...e In addition: Warning message: the condition has length > 1 and only the first element will be used in: if (na.rm) x <- x[!is.na(x)] Would anybody explain which caused this error, and how to modify it? Thanks! _____________________________________________ Dr.Ruixin ZHU Shanghai Center for Bioinformation Technology rxzhu@scbit.org zhurx@mail.sioc.ac.cn 86-21-13040647832 [[alternative HTML version deleted]]

Dear R community, I am trying to resolve a discrepancy between the way SPSS and R handle 2-way, repeated measures ANOVA. An experiment was performed in which samples were drawn before and after treatment of four groups of subjects (control and disease states 1, 2 and 3). Each group contained five subjects. An experimental measurement was performed on each sample to yield a

.... > data(mtcars) > attach(mtcars) > x11() > densityplot(~mpg | carb) Error in if (!(lo <- min(hi, IQR(x)/1.34))) (lo <- hi) || (lo <- abs(x[1])) || : missing value where logical needed John Maindonald email : john.maindonald@anu.edu.au Centre for Bioinformation Science, phone : (6125)3473 c/o MSI, fax : (6125)5549 John Dedman Mathematical Sciences Building (Building 27) Australian National University Canberra ACT 0200 Australia

Hi I have a matrix with 30 observations and roughly 30000 variables, each obs belongs to one of two groups. With svm and slda I get into memory troubles ('cannot allocate vector of size' roughly 2G). PCA LDA runs fine. Are there any way to use the memory issue withe SVM's? Or can you recommend any other classification method for such huge datasets? P.S. I run suse 9.1 on a 2G RAM

...ience. It would make quite a difference whether that audience was made up of field biologists or pyschologists. Professional statisticians, who were not the book's primary audience, are another matter again. John Maindonald email : john.maindonald at anu.edu.au Centre for Bioinformation Science, phone : (6125)3473 c/o SMS, fax : (6125)5549 John Dedman Mathematical Sciences Building (Building 27) Australian National University Canberra ACT 0200 Australia -.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.-.- r-hel...

Dear R community, In the excellent nlme package the default diagnostic plot graphs the innermost residuals against innermost fitted values. I recently fit a mixed-effects model in which there was a very clear positive linear trend in this plot. I inferred that this trend occurred because my fixed effect was a two-level factor, and my random effect was a 12-level factor. The negative residuals

....anova.test for interaction effects > > Your F value is so low as to make me suspect your model. Where did the > 144 denominator degrees of freedom come from? > John Maindonald email: john.maindonald at anu.edu.au phone : +61 2 (6125)3473 fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200.

....r), pos=2, cex=cex.id, offset=0.25) } } if (!one.fig && par("oma")[3] >= 1) mtext(sub.caption, outer = TRUE, cex = 1.25) invisible() } John Maindonald email: john.maindonald@anu.edu.au phone : +61 2 (6125)3473 fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200.

Consider the following analysis of a class experiment done as a Latin Square: > spinner <- gl(4,4,16,label=c("Murray","Angela","Shasha","Stephen")) > order <- gl(4,1,16) > treat <- scan() 1: 1 2 4 3 5: 4 3 1 2 9: 3 4 2 1 13: 2 1 3 4 17: Read 16 items > coin <-

I apologize if this question is not completely appropriate for this list. I have been using SAS for a while and am now in the process of learning some C and R as a part of my graduate studies. All of the statistical packages I have used generally yield p-values as a default output to standard procedures. This week I have been reading "Testing Precise Hypotheses" by J.O. Berger