Re: [R] use "factor" for categorical covariate in Cox PH model

2006-07-18 Thread Dieter Menne
Linda Lei bccrc.ca> writes: > > When dealing with the categorical covariates (for example 3 groups), it > will come out different results if we add the command "factor" in front > of the categorical covariate or not The catch is here: the covariate is not a "categorial", but a number. In that

[R] Output and Word

2006-07-18 Thread sharon snowdon
Hi I have just started to have a look at R. I have used most stats software packages and can use perl, visual basic etc. I am interested in how well it handles lots of output e.g. tables or charts. How would you get lots of output most easily and quickly into a Word document? Sharon Snowdon --

Re: [R] String manipulation and formatting

2006-07-18 Thread Bashir Saghir (Aztek Global)
Thanks to Richard, Gabor and Marc for some nice solutions to my request. I have a new problem: > xify(30.10) [1] "X.X" > xify(30.11) [1] "XXX.XXX" The problem originates from: > as.numeric(unlist(strsplit(as.character(15.10), "\\."))

Re: [R] String manipulation and formatting

2006-07-18 Thread Hans-Joerg Bibiko
Hi, an other way without any libraries and written as a one-line-command would be something like this: xify <- function(x) { gsub("[0-9]","X", sprintf( paste( "%", ifelse( format(x,

Re: [R] String manipulation and formatting

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Bashir Saghir (Aztek Global) wrote: > Thanks to Richard, Gabor and Marc for some nice solutions to my request. > > I have a new problem: > > > xify(30.10) > [1] "X.X" > > xify(30.11) > [1] "XXX.XXX" > > The problem

Re: [R] Nested functions

2006-07-18 Thread John Wiedenhoeft
Am Montag, den 17.07.2006, 19:42 -0400 schrieb jim holtman: > You were down at least 5300 levels in subroutine calls. Here is the > first couple of lines from 'traceback()': > > 5363: vavb(a, b, n, v, x) ... > 5316: vavb(a, b, n, v, x) > The other thing is that there is no 'x' defined in the

Re: [R] String manipulation and formatting

2006-07-18 Thread Sean O'Riordain
Does it have to be a stop char ".", or could it be a separate parameter, i.e. put in a comma, then the 10 becomes an integer... s/ On 18/07/06, Prof Brian Ripley <[EMAIL PROTECTED]> wrote: > On Tue, 18 Jul 2006, Bashir Saghir (Aztek Global) wrote: > > > Thanks to Richard, Gabor and Marc for some

[R] Object name and Strings?

2006-07-18 Thread Stéphane Cruveiller
Hi all, Is there a simple way to convert an object name to a characters string? Stéphane. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.ht

Re: [R] Object name and Strings?

2006-07-18 Thread Jacques VESLOT
> deparse(substitute(a)) [1] "a" --- Jacques VESLOT CNRS UMR 8090 I.B.L (2ème étage) 1 rue du Professeur Calmette B.P. 245 59019 Lille Cedex Tel : 33 (0)3.20.87.10.44 Fax : 33 (0)3.20.87.10.31 http://www-good.ibl.fr --

Re: [R] String manipulation and formatting

2006-07-18 Thread Bashir Saghir (Aztek Global)
In my opinion there is nothing wrong with asking the user to enter strings as strings. I am working on some functions for SAS users (with limited R/S experience) who are used to working with the SAS macro language. I was trying to keep things simple for them by not forcing the use of quotes (a styl

Re: [R] String manipulation and formatting

2006-07-18 Thread Bashir Saghir (Aztek Global)
As I am trying to maintain consistency with some SAS macros I prefer not to change the "standard definitions" in use at the moment. If I change things too much I don't think many people with use my new functions. Thanks, Saghir -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PRO

Re: [R] Object name and Strings?

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Stéphane Cruveiller wrote: > Hi all, > > Is there a simple way to convert an object name to a characters string? Yes, as.character, as in > x <- as.name("foo") > x foo > as.character(x) [1] "foo" However, I suspect you are not using the words in their technical sense (a na

[R] package installation problems

2006-07-18 Thread Demmler J.
Hello, I just updated from R 2.1.1 to R 2.3.1 (I also updated from Fedora 3 to Fedora 4 if that is of any importance). However, several packages (e.g. fields etc.) refuse to be installed. I get the following error message: [EMAIL PROTECTED] R-files]# R CMD INSTALL fields_2.3.tar.gz * Installing *

Re: [R] Large datasets in R

2006-07-18 Thread Daniele Medri
Il giorno lun, 17/07/2006 alle 15.00 -0400, Deepankar Basu ha scritto: > I have been trying to read up the posting on the R-archive on this > topic; but I could not really understand all the discussion, nor could I > reach the "end". So, I am not aware of the current state of consensus on > the iss

Re: [R] Object name and Strings?

2006-07-18 Thread Stéphane Cruveiller
Thanks for your answer. Here is what I am trying to do. I have a list which is called MyList. I would like to get only the "name" of this object as a simple characters string. i.e. Is there a function in R which is able to give: > name<-fun(Mylist) > name "MyList" thanks in advance, Stéphan

Re: [R] Object name and Strings?

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Stéphane Cruveiller wrote: > Thanks for your answer. > > Here is what I am trying to do. > I have a list which is called MyList. I would like to get only the "name" > of this object as a simple characters string. i.e. Is there a function in R > which is able > to give: > > >

Re: [R] Object name and Strings?

2006-07-18 Thread Stéphane Cruveiller
That is exactly what I wanted to do... Thanks for the hint... Stéphane. Prof Brian Ripley a écrit : > On Tue, 18 Jul 2006, Stéphane Cruveiller wrote: > > >> Thanks for your answer. >> >> Here is what I am trying to do. >> I have a list which is called MyList. I would like to get only the "nam

[R] Spectral data analysis - parameter selection

2006-07-18 Thread Dirk De Becker
Hello all, I am doing some spectral data analysis using R, and I already got some help on how to do savitsky-golay preprocessing. Now I would like to perform parameter selection (i.e. I would like to assess which spectral lines are relevant to keep in the model, and which are not). There exist

Re: [R] String manipulation and formatting

2006-07-18 Thread Hans-Joerg Bibiko
Hi, only if you allow to input x as a string then you can use, maybe, simply the following one-line-command: xify <- function(x) { gsub( "[0-9]", "X", sprintf( paste("%",ifelse(regexpr("\\.",x) > 0, x, x<-paste(x,".

Re: [R] package installation problems

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Demmler J. wrote: > Hello, > > I just updated from R 2.1.1 to R 2.3.1 (I also updated from Fedora 3 to How? Did you install an RPM? Before or after OS update? I checked the RPM for fc4 on CRAN which has C compiler:gcc -O2 -g -pipe -Wp,-D_FORTIFY_SOURCE=

Re: [R] Output and Word

2006-07-18 Thread mail
Hi, you might try to use the R2HTML package and then import the html files into word. please see. http://cran.r-project.org/doc/Rnews/Rnews_2003-3.pdf Another way: use sweave for tex/latex output and transform it to rtf. Friedrich Schuster --- Your post was: sharon snowdon sharonsnowdon at

Re: [R] Nested functions

2006-07-18 Thread John Wiedenhoeft
> I was checking out your function and thinking of trying to make it more > efficient when I noticed your comment above. :-D > Yes, bioinformatics is full > of this stuff - have a look at Bioconductor. I'm about it, but it'll take some time. It's a vast repository... For the meantime, I've a

[R] Running R as root

2006-07-18 Thread roderick . castillo
Hello Using R v. 2.3.1 which I installed recently, when I start it as root, there is nothing I can do. I get "Error: function xx not found" even when trying to leave R using q(). R works fine when started by an ordinary user. I rechecked the root environment several times and even have set it simil

Re: [R] Running R as root

2006-07-18 Thread Peter Dalgaard
[EMAIL PROTECTED] writes: > Hello > Using R v. 2.3.1 which I installed recently, when I start it as root, there > is nothing > I can do. I get "Error: function xx not found" even when trying to leave R > using > q(). R works fine when started by an ordinary user. I rechecked the root > environment

[R] Package for autocorrelation analysis?

2006-07-18 Thread Ivan Rubio Perez
Hi! Dear All, I want to implement an autocorrelation analysis and estimated the Moran's I in a set of ecological traits. I seek for an R package that do this analysis, however, I couldn't found none that implement it. May be I'm lost in the universe of the Contributed Packages but I couldn't fou

[R] Running R as root

2006-07-18 Thread roderick . castillo
Problem solved: I had a .Renviron file in root's Home directory pointing to the wrong R installation... Thanks anyway Rick __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www

Re: [R] Output and Word

2006-07-18 Thread Gabor Grothendieck
If its text that you want included in a larger Word document you can create a text or HTML file from R and then when inserting it into Word insert it as a link rather than copying it in. output a file from R In Word Insert | File browse to the file so its name appears in the File name box

[R] Surv analysis with multiple internal time-dep covariates measured over different time intervals

2006-07-18 Thread z . dalton
Hi, I am analysing survival data (diagnosis time until death/cens) with time-dependent covariates. I would like to fit a cox model using the (start, stop] variable. In summary, I have the multiple internal time dependent covariates as follows; 1). LAS score (measured weekly on low r

Re: [R] engineering notation format

2006-07-18 Thread Hans-Joerg Bibiko
Hi, One week ago Sam Walker asked for a way to format a number to the engineering notation? After my suggestion I received many mails how to use this function formatEng within plots dealing, e.g., with physics and SI prefixes. So, I wrote a humble wiki article about that. If you are interes

Re: [R] Output and Word

2006-07-18 Thread Neuro LeSuperHéros
R can handle as many graphs/table as you ask it to. I don't know what you're trying to do, but I generate lots of graphs using loops and generating filenames on the spot. See FAQ 7.34 to see how it's done. http://cran.r-project.org/doc/FAQ/R-FAQ.html#How-can-I-save-the-result-of-each-iteration-i

Re: [R] Nested functions

2006-07-18 Thread Richard M. Heiberger
Please look at http://www.turbulence.org/Works/song/ This is a website by Martin Wattenberg that visually displays the types of patterns you are looking for. He gave a paper at the Joint Statistics Meetings in Minneapolis 2005. __ R-help@stat.math.eth

Re: [R] Package for autocorrelation analysis?

2006-07-18 Thread Gavin Simpson
On Tue, 2006-07-18 at 07:10 -0500, Ivan Rubio Perez wrote: > Hi! > Dear All, > > I want to implement an autocorrelation analysis and estimated the Moran's I > in a set of > ecological traits. I seek for an R package that do this analysis, however, I > couldn't > found none that implement it. May

[R] FW: Large datasets in R

2006-07-18 Thread Marshall Feldman
Hi, I have two further comments/questions about large datasets in R. 1. Does R's ability to handle large datasets depend on the operating system's use of virtual memory? In theory, at least, VM should make the difference between installed RAM and virtual memory on a hard drive primarily a determ

[R] RSiteSearch() not in posting guide

2006-07-18 Thread Gavin Simpson
Hi, In a recent reply I sent to the list, my initial response was to suggest, politely that by reading the posting guide and learning to use the supplied tools one can often help oneself. I then went on to say that reading the posting guide would have led you to RSiteSearch("insert query"). Luckil

Re: [R] RSiteSearch() not in posting guide

2006-07-18 Thread Gabor Grothendieck
I think the posting guide may have been written prior to the existence of RSiteSearch as a builtin command. On 7/18/06, Gavin Simpson <[EMAIL PROTECTED]> wrote: > Hi, > > In a recent reply I sent to the list, my initial response was to > suggest, politely that by reading the posting guide and lear

Re: [R] FW: Large datasets in R

2006-07-18 Thread Roger D. Peng
In my experience, the OS's use of virtual memory is only relevant in the rough sense that the OS can store *other* running applications in virtual memory so that R can use as much of the physical memory as possible. Once R itself overflows into virtual memory it quickly becomes unusable. I'm n

Re: [R] R and DDE (Dynamic Data Exchange)

2006-07-18 Thread Philippe Grosjean
Hello Vincent, I think there is not much else than tcltk2. It is a complete implementation of DDE (client/server), so it should fit your needs. There are lots of examples on the man page. Please, if you think it could be helpful for other users, do submit examples. I think real-time acquisitio

Re: [R] FW: Large datasets in R

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Marshall Feldman wrote: > Hi, > > I have two further comments/questions about large datasets in R. > > 1. Does R's ability to handle large datasets depend on the operating > system's use of virtual memory? In theory, at least, VM should make the > difference between install

[R] using split.screen?

2006-07-18 Thread Bill Shipley
Hello. I am having trouble understanding the use of split.screen. I want to divide the device surface first into 4 equal screens: split.screen(figs=c(2,2)) This works. I next want to subdivide each of these 4 screens into 10 subscreens. I do, for the first of these 4 screens: screen(1,new=

[R] Inflated Array

2006-07-18 Thread Hadassa Brunschwig
Hi R-users! I am trying to create a what I call inflated array (maybe there is already some other name for that). It is an array that changes dinamically its dimensions, e.g. the higher the number of third dimensions, the more rows in the array. So for example the array could look like the followi

Re: [R] R and DDE (Dynamic Data Exchange)

2006-07-18 Thread Gabor Grothendieck
You can access DDE via COM as in this example which uses DDE to open an Excel file. Note that Excel also supports COM directly and normally one would use COM with Excel, not DDE, so you might check if your application also supports COM. # opens an excel spreadsheet c:\test.xls using dde library(R

Re: [R] using split.screen?

2006-07-18 Thread Prof Brian Ripley
On Tue, 18 Jul 2006, Bill Shipley wrote: > Hello. I am having trouble understanding the use of split.screen. I want > to divide the device surface first into 4 equal screens: > split.screen(figs=c(2,2)) > > This works. > > I next want to subdivide each of these 4 screens into 10 subscreens.

Re: [R] using split.screen? [Broadcast]

2006-07-18 Thread Wiener, Matthew
This means that the margins for 10 screens would take up more room than you have - essentially the plot area is being squeezed to nothing. You can try reducing your margins using par. Also, it looks like you're trying to split into 20 screens there. Hope this helps, Matt -Original Message

Re: [R] FW: Large datasets in R

2006-07-18 Thread Ritwik Sinha
Hi, I have a related question. How differently do other statistical softwares handle large data? The original post claims that 350 MB is fine on Stata. Some one suggested S-Plus. I have heard people say that SAS can handle large data sets. Why can others do it and R seem to have a problem? Don't

Re: [R] Nested functions

2006-07-18 Thread Thomas Lumley
On Mon, 17 Jul 2006, John Wiedenhoeft wrote: > Hi there, > > I'm having myself a hard time writing an algorithm for finding patterns > within a given melody. In a vector I'd like to find ALL sequences that > occur at least twice, without having to check all possible patterns via > pattern matching

Re: [R] FW: Large datasets in R

2006-07-18 Thread Gabor Grothendieck
S-Plus stores objects as files whereas R stores them in memory. SAS was developed many years ago when optimizing computer resources was more important than it is now. On 7/18/06, Ritwik Sinha <[EMAIL PROTECTED]> wrote: > Hi, > > I have a related question. How differently do other statistical > sof

Re: [R] RSiteSearch() not in posting guide

2006-07-18 Thread Martin Maechler
> "Gabor" == Gabor Grothendieck <[EMAIL PROTECTED]> > on Tue, 18 Jul 2006 09:29:07 -0400 writes: Gabor> I think the posting guide may have been written prior Gabor> to the existence of RSiteSearch as a builtin command. yes, that's correct. Thank you, Gavin, for the suggestion

[R] A contingency table of counts by case

2006-07-18 Thread Serguei Kaniovski
Here is an example of the data.frame that I have, df<-data.frame("case"=rep(1:5,each=9),"id"=rep(1:9,times=5),"x"=round(runif(length(rep(1:5,each=9) "case" represents the cases, "id" the persons, and "x" is the binary state. I would like to know in how many cases any two persons a. both hav

Re: [R] FW: Large datasets in R

2006-07-18 Thread Thomas Lumley
On Tue, 18 Jul 2006, Ritwik Sinha wrote: > Hi, > > I have a related question. How differently do other statistical > softwares handle large data? > > The original post claims that 350 MB is fine on Stata. Some one > suggested S-Plus. I have heard people say that SAS can handle large > data sets. W

Re: [R] Nested functions

2006-07-18 Thread John Wiedenhoeft
Am Dienstag, den 18.07.2006, 22:09 -0400 schrieb Jim Lemon: > Hi John, > > Minor bug - I zeroed the hit counter in the wrong place. > > find.replay<-function(tunestring,maxlen) { > return(matchlist) > } Dear Jim, many, many thanks for your effords :-D!!! Your program is great and very el

Re: [R] A contingency table of counts by case

2006-07-18 Thread Jacques VESLOT
library(gtools) apply(combinations(9,2), 1, function(x) with(df[df$id %in% x, ], table(x, id))) --- Jacques VESLOT CNRS UMR 8090 I.B.L (2ème étage) 1 rue du Professeur Calmette B.P. 245 59019 Lille Cedex Tel : 33 (0)3.20.87.10.44 Fax

[R] Survey-weighted ordered logistic regression

2006-07-18 Thread Debarchana Ghosh
Hi, I am trying to fit a model with an ordered response variable (3 levels) and 13 predictor variables. The sample has complex survey design and I've used 'svydesign' command from the survey package to specify the sampling design. After reading the manual of 'svyglm' command, I've found that you c

[R] I think this is a bug

2006-07-18 Thread Xavier Barron
Hello! I work with: R : Copyright 2006, The R Foundation for Statistical Computing Version 2.3.1 (2006-06-01) On Windows XP Professional (Version 2002) SP2 I think there is a bug in the conditional execution if (expr1) {expr2} else {expr3} If I try: "if (expr1) expr2 else expr3" it works w

[R] How can I extract information from list which class is nls

2006-07-18 Thread Xavier Barron
Hello! I work with : R : Copyright 2006, The R Foundation for Statistical Computing Version 2.3.1 (2006-06-01) On Windows XP Professional (Version 2002) SP2. At this moment I use the function "nls" combined with a selfStar model (SSmicmen, related to Michaelis-Menten equation, and provided by the

Re: [R] Inflated Array

2006-07-18 Thread Ben Bolker
Hadassa Brunschwig gmail.com> writes: > > Hi R-users! > > I am trying to create a what I call inflated array (maybe there is > already some other name for that). It is an array that changes > dinamically its dimensions, e.g. the higher the number of third > dimensions, the more rows in the arra

Re: [R] R and DDE (Dynamic Data Exchange)

2006-07-18 Thread vincent
Thanks Gabor and Philippe. Special thanks to Philippe for his tcltk2 nice job. I'm testing differents approaches for my problem. I'll return info if I use DDE + tcltk2. Vincent __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listin

[R] Endogenous Tobit/Probit model

2006-07-18 Thread Leandro Magnusson
Hi I would like to know if there is a package that allows me to implement endogenous Tobit/Probit model. Example: res1 <- rnorm(N); res2 <- res1*0.5 + rnorm(N) x <- z[,1]*2 + res1; ys <- x*b + res2; d <- (ys>0); #dummy variable y <- d*ys; y is censored and x is correlated

Re: [R] I think this is a bug

2006-07-18 Thread Thomas Lumley
On Tue, 18 Jul 2006, Xavier Barron wrote: Hello! I work with: R : Copyright 2006, The R Foundation for Statistical Computing Version 2.3.1 (2006-06-01) On Windows XP Professional (Version 2002) SP2 I think there is a bug in the conditional execution if (expr1) {expr2} else {expr3} If I try:

Re: [R] How can I extract information from list which class is nls

2006-07-18 Thread Petr Pikal
Hi your fit is an object (list) and you could use some functions like summary or coef to extract usefull information from it or you can call its components on your own. > DNase1 <- subset(DNase, Run == 1) > > ## using a selfStart model > fm1DNase1 <- nls(density ~ SSlogis(log(conc), Asym, xmi

Re: [R] I think this is a bug

2006-07-18 Thread Petr Pikal
Hi not at all works for me > a<-1 > b<-2 > if (a>b) {print("Hallo")} else {print("OK")} [1] "OK" > if (a you probably started your else on new line e.g. > if (a if (a HTH Petr On 18 Jul 2006 at 17:43, Xavier Barron wrote: Date sent: Tue, 18 Jul 2006 17:43:42 +0200 (CEST) Fr

Re: [R] Output and Word

2006-07-18 Thread Greg Snow
Others have suggested using R2HTML (which is a good option). Another option is to use Sweave and specifically the new odfWeave package for R. This works on OpenOffice files rather than word files (but OpenOffice http://www.openoffice.org/ can inport and export word documents). The basic idea is

[R] Sweave and multipage lattice

2006-07-18 Thread Dieter Menne
Dear R-Listeners, as the Sweave faq says: http://www.ci.tuwien.ac.at/~leisch/Sweave/FAQ.html creating several figures from one figure chunk does not work, and for standard graphics, a workaround is given. Now I have a multipage trellis plot with an a-priori unknown number of pages, and I don't s

Re: [R] Survey-weighted ordered logistic regression

2006-07-18 Thread Thomas Lumley
On Tue, 18 Jul 2006, Debarchana Ghosh wrote: > Hi, > > I am trying to fit a model with an ordered response variable (3 levels) and > 13 predictor variables. The sample has complex survey design and I've used > 'svydesign' command from the survey package to specify the sampling design. > After read

[R] Reconfiguring wide frame to long frame

2006-07-18 Thread Jesse Albert Canchola
Greetings, fellow R'ers. How can I get this frame in R: ID meas ID.1 meas.1 1 1.13 1.2 2 2.14 2.2 to look like this (stacking): ID meas 1 1.1 2 2.1 3 1.2 4 2.2 It's not really the reshape function (or is it?) because we can consider the additional colum

Re: [R] Large datasets in R

2006-07-18 Thread DEEPANKAR BASU
Thanks a lot for all the responses. The general drift of all the messages was the suggestion to use some database management package that has a nice interface with R; and most of the suggestions pointed in the direction of SQL. I will look into the SQL package and start learning to use it along

Re: [R] Reconfiguring wide frame to long frame

2006-07-18 Thread Gabor Grothendieck
Try this: # set up test data Lines <- "ID meas ID.1 meas.1 1 1.13 1.2 2 2.14 2.2 " DF <- read.table(textConnection(Lines), header = TRUE) # reshape matrix(t(DF), nc = 2, byrow = TRUE, dimnames = list(NULL, colnames(DF)[1:2])) On 7/18/06, Jesse Albert Canchola <

[R] How best to deal with returned errors?

2006-07-18 Thread Quin Wills
Hi, What is the best general strategy to prevent returned errors from interrupting whatever it is I am running? Only by using options()? This is a problem for me in 2 particular cases: (i) An error breaking my loops. (ii) I would like to run some regressi

Re: [R] Reconfiguring wide frame to long frame

2006-07-18 Thread Gabor Grothendieck
Sorry, in looking at this again my previous code did not give the same ordering you indicated. Instead using the same DF try this: rbind(as.matrix(DF[,1:2]), as.matrix(DF[,3:4])) Both this and the last piece of code produce matrices so use as.data.frame if you want a data frame. On 7/18/06, Gab

Re: [R] R and DDE (Dynamic Data Exchange)

2006-07-18 Thread Richard M. Heiberger
I am thrilled to learn tcltk2 has DDE capability. It is the piece I have been needing to make ESS work directly with the RGUI on Windows. GNU emacs on Windows has a ddeclient, but no access to COM. So if R, or tcltk2 talking in both directions to R, has a ddeserver, all should be possible. I wil

[R] bilinear regression

2006-07-18 Thread Crabb, David
I think this is an easy question, but I would be grateful for any advice on how to implement this in R. I simply have a response variable (y) that I am trying to predict with one explanatory variable (x) but the shape of the scatter plot is distinctly bilinear. It would be best described by two st

Re: [R] Reconfiguring wide frame to long frame

2006-07-18 Thread Jesse Albert Canchola
Many thanks, Gabor. That worked great! I'm ecstatic. Best regards, Jesse "Gabor Grothendieck" <[EMAIL PROTECTED]> 07/18/2006 10:12 AM To "Jesse Albert Canchola" <[EMAIL PROTECTED]> cc r-help@stat.math.ethz.ch Subject Re: [R] Reconfiguring wide frame to long frame Try this: # set up

Re: [R] Reconfiguring wide frame to long frame

2006-07-18 Thread Jesse Albert Canchola
Thanks, Gabor. Since the data stacking components are independent, that didn't matter much but I am grateful for your follow-up code to match the desired output specifically. Regards, Jesse "Gabor Grothendieck" <[EMAIL PROTECTED]> 07/18/2006 10:36 AM To "Jesse Albert Canchola" <[EMAIL P

Re: [R] bilinear regression

2006-07-18 Thread Christos Hatzis
It appears that you might have a latent (hidden) explanatory variable that causes the two-population appearance. If you have some ideas on what that other factor might be, you could try two separate linear regressions for each value of the latent factor and compare the slopes and intercepts. You

[R] Test for equality of coefficients in multivariate multiple regression

2006-07-18 Thread Ulrich Keller
Hello, suppose I have a multivariate multiple regression model such as the following: > DF<-data.frame(x1=rep(c(0,1),each=50),x2=rep(c(0,1),50)) > tmp<-rnorm(100) > DF$y1<-tmp+DF$x1*.5+DF$x2*.3+rnorm(100,0,.5) > DF$y2<-tmp+DF$x1*.5+DF$x2*.7+rnorm(100,0,.5) > x.mlm<-lm(cbind(y1,y2)~x1+x2,dat

[R] JGR & help()

2006-07-18 Thread Michael Kubovy
Dear R-helpers, In JGR, how to I get the help() to update when I install a new package? > sessionInfo() Version 2.3.1 (2006-06-01) powerpc-apple-darwin8.6.0 attached base packages: [1] "datasets" "methods" "stats" "graphics" "grDevices" "utils" "base" other attached packages:

[R] Using corStruct in nlme

2006-07-18 Thread grieve
I am having trouble fitting correlation structures within nlme. I would like to fit corCAR1, corGaus and corExp correlation structures to my data. I either get the error "step halving reduced below minimum in pnls step" or alternatively R crashes. My dataset is similar to the CO2 example in th

[R] R-help in a newsgroup

2006-07-18 Thread Darren Weber
Hi, I find a lot of the R-help email traffic overloads my inbox. My IT managers are not really happy for me to be subscribed to several high-traffic email lists. I don't want to lose my contact with the R-help emails, so I'm having to consider various ways of handling the traffic. Anyhow, I'm w

[R] Reproducible Research - Examples

2006-07-18 Thread Phil Heilman
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 prop

Re: [R] R-help in a newsgroup

2006-07-18 Thread Marc Schwartz (via MN)
On Tue, 2006-07-18 at 11:30 -0700, Darren Weber wrote: > Hi, > > I find a lot of the R-help email traffic overloads my inbox. My IT > managers are not really happy for me to be subscribed to several > high-traffic email lists. I don't want to lose my contact with the > R-help emails, so I'm havi

Re: [R] R-help in a newsgroup

2006-07-18 Thread Duncan Murdoch
On 7/18/2006 2:30 PM, Darren Weber wrote: > Hi, > > I find a lot of the R-help email traffic overloads my inbox. My IT > managers are not really happy for me to be subscribed to several > high-traffic email lists. I don't want to lose my contact with the > R-help emails, so I'm having to conside

[R] Question about summing to zero

2006-07-18 Thread Jim Frederick
Hi, When I used x <- c(10,10,10,10,5,5,5,5) sum(x) x <- x - .Last.value/8 the result was zero, as I expected. However, when I used x <- rnorm(101,0,10) sum(x) x <- x - .Last.value/101 sum(x) I did not get zero, but -2.664535e-15. OK, that's fairly close to zero, but I tried to improve the figur

Re: [R] Test for equality of coefficients in multivariate multiple regression

2006-07-18 Thread John Fox
Dear Ulrich, I'll look into generalizing linear.hypothesis() so that it handles multivariate linear models. Meanwhile, vcov(x.mlm) will give you the covariance matrix of the coefficients, so you could construct your own test by ravelling coef(x.mlm) into a vector. I hope that this helps, John

Re: [R] Question about summing to zero

2006-07-18 Thread Thomas Lumley
On Tue, 18 Jul 2006, Jim Frederick wrote: > Hi, > > When I used > x <- c(10,10,10,10,5,5,5,5) > sum(x) > x <- x - .Last.value/8 > the result was zero, as I expected. > However, when I used > x <- rnorm(101,0,10) > sum(x) > x <- x - .Last.value/101 > sum(x) > I did not get zero, but -2.664535e-15.

[R] Extended example of R2HTML?

2006-07-18 Thread Michael Kubovy
Dear R-helpers, Can someone point me to an extended example of use of R2HTML? _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick

Re: [R] FW: Large datasets in R

2006-07-18 Thread Marshall Feldman
Well, SPSS used to claim that all its algorithms dealt with only one case at a time and therefore that it could handle very large files. I suppose a large correlation matrix could cause it problems. Marsh Feldmman -Original Message- From: Ritwik Sinha [mailto:[EMAIL PROTECTED] Se

[R] How to write a function in a graph

2006-07-18 Thread junguo liu
Dear R-ers, I conducted a regression analysis, and then intended to add the regression function (y=4.33+1.07x) in a graph. But the following code can only give me a text like y=a+bx. Who can help me out? Thank you very much in advance. CODE # Read data x <- c(1, 2, 3, 4, 5

Re: [R] How to write a function in a graph

2006-07-18 Thread Thomas Lumley
On Tue, 18 Jul 2006, junguo liu wrote: > Dear R-ers, > > I conducted a regression analysis, and then intended to add the > regression function (y=4.33+1.07x) in a graph. But the following code > can only give me a text like y=a+bx. Who can help me out? Thank you very > much in advance. This i

Re: [R] FW: Large datasets in R

2006-07-18 Thread François Pinard
[Thomas Lumley] >People have used R in this way, storing data in a database and reading it >as required. There are also some efforts to provide facilities to support >this sort of programming (such as the current project funded by Google >Summer of Code: http://tolstoy.newcastle.edu.au/R/devel

[R] Plot fit of a "generic" function

2006-07-18 Thread Gregor Gorjanc
Hello! Say I have a function, which creates a design matrix i.e. myFunc <- function(x) { ret <- cbind(x, x*x, x*x*x) colnames(ret) <- 1:ncol(ret) return(ret) } n <- 200 x <- runif(n=n, min=0, max=100) y <- myFunc(x) %*% c(1, 0.2, -0.0002) + rnorm(n=n, sd=100) then I can use this in formu

Re: [R] FW: Large datasets in R

2006-07-18 Thread Berton Gunter
Or, more succinctly, "Pinard's Law": The demands of ever more data always exceed the capabilities of ever better hardware. ;-D -- Bert Gunter Genentech Non-Clinical Statistics South San Francisco, CA > -Original Message- > From: [EMAIL PROTECTED] > [mailto:[EMAIL PROTECTED] On Behal

Re: [R] Plot fit of a "generic" function

2006-07-18 Thread Gabor Grothendieck
You could plot y vs. fitted(y.lm) where y.lm is the output of lm or plot both y and fitted(y.lm) against x on the same chart. On 7/18/06, Gregor Gorjanc <[EMAIL PROTECTED]> wrote: > Hello! > > Say I have a function, which creates a design matrix i.e. > > myFunc <- function(x) > { > ret <- cbind(

[R] JavaGD

2006-07-18 Thread Castalanelli, Mark
Can someone please help im trying to use JGR' version 1.4-2 on a IBM Thinkcentre P4 with windows xp with the R v2.3.1, but any time I try and plot or use JavaGD I get this error > plot(1:10) Error in JavaGD() : unable to start device JavaGD In addition: Warning message: Another VM is runnin

Re: [R] Test for equality of coefficients in multivariate multiple regression

2006-07-18 Thread Andrew Robinson
Hi Uli, I suggest that you try to rewrite the model system into a single mixed-effects model, which would allow direct parameterization of the tests that you're interested in. A useful article, which may be overkill for your needs, is: Hall, D.B. and Clutter, M. (2004). Multivariate multilevel n

[R] [R-pkgs] odfWeave Package

2006-07-18 Thread Kuhn, Max
I've been meaning send an announcement for this package, but Greg Snow beat me to the punch today. Max The odfWeave package is now available on CRAN at http://lib.stat.cmu.edu/R/CRAN/src/contrib/Descriptions/odfWeave.html and your local mirror. The package extends Sweave to Open Document For

Re: [R] How to find S4 generics? (was: inames() function and lmer())

2006-07-18 Thread Spencer Graves
* * "methods" * * You have asked an excellent question. I can provide a partial answer below. First, however, I wish to pose a question of my own, which could help answer your question: How can one obtain a simple list of the available generics for a class?

[R] voronoi tessellations

2006-07-18 Thread zubin
Hello, looking to draw a voronoi tessellations in R - can anyone recommend a package that has tackled this? some background: i have a economic data set and created a sammons projection, like to now overlay a voronoi tessellation over the sammons 2-D solution for a slick visual, and potentially

[R] Problem with ordered logistic regression using polr function.

2006-07-18 Thread Debarchana Ghosh
Hi, I'm trying to fit a ordered logistic regression. The response variable (y) has three levels (0,1,2). The command I've used is: /ordlog<-polr(y~x1+x2+x3+x4, data=finalbase, subset=heard, weight=wt, na.action=na.omit) / (There are no NA's in y but there are NA's in X's) The error I'm getting

[R] Problem with ordered logistic regression using polr function

2006-07-18 Thread Debarchana Ghosh
Hi, I'm trying to fit a ordered logistic regression. The response variable (y) has three levels (0,1,2). The command I've used is: ordlog<-polr(y~x1+x2+x3+x4, data=finalbase, subset=heard, weight=wt, na.action=na.omit) (There are no NA's in y but there are NA's in X's) The error I'm getting is

Re: [R] voronoi tessellations

2006-07-18 Thread Don MacQueen
I'll suggest going to the CRAN packages page and doing a search for "voronoi". Also, search for 'triangulation', since that is one of the uses of them. -Don At 11:46 PM -0400 7/18/06, zubin wrote: >Hello, looking to draw a voronoi tessellations in R - can anyone >recommend a package that has tack

[R] conditional plot

2006-07-18 Thread Manoj
Hi, Can anyone pls help me in plotting the following data? The data-set contains company name, specification-1, specification-2. The graph would basically plot company name with specification-1 on x-axis, & specification-2 on y-axis. Simply put - company name should get class

  1   2   >