[R] Help!!
Hello, I am a Second year PhD student in Dept of Management and Organization from NUS Business School, Singapore. Presently I am doing a multilevel analysis for a small research project with my supervisor. While surfing the web, I found your website on multilevel analysis. These are very useful for the understanding of the concept to me. I was also trying to learn more by completing the lab exercises. For doing that I have installed R 1.6.2 software (and also R1.9.1) from the web. Actually, I need to calculate inter member agreement (rwg) and inter member reliability (ICC). I was told that the R software developed by you can help me in this regard. But at the same time I am not able to upload multilevel package from the library by using the following command. library(multilevel) It says the package doesn't exist. I really don't know how to proceed further. As I want to calculate Rwg and ICC. I will be very thankful to you if you can help me in this regard. Thanking you Best regards, Sankalp [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nls fitting problems (singularity)
Have a look at optim (which supports a number of different algorithms via
the method= arg) and segmented in package segmented which does segmented
regression.
For example,
ss - function(par) {
b - par[1]; c1 - par[2]; c2 - par[3]; d - par[4]
x - df1$x; y - df1$y
sum((y - (d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0)))^2)
}
optim(sl,ss)
Karl Knoblick karlknoblich at yahoo.de writes:
:
: Hallo!
:
: I have a problem with fitting data with nls. The first
: example with y1 (data frame df1) shows an error, the
: second works fine.
:
: Is there a possibility to get a fit (e.g. JMP can fit
: also data I can not manage to fit with R). Sometimes I
: also got an error singularity with starting
: parameters.
:
: # x-values
: x-c(-1,5,8,11,13,15,16,17,18,19,21,22)
: # y1-values (first data set)
: y1=c(-55,-22,-13,-11,-9.7,-1.4,-0.22,5.3,8.5,10,14,20)
: # y2-values (second data set)
: y2=c(-92,-42,-15,1.3,2.7,8.7,9.7,13,11,19,18,22)
:
: # data frames
: df1-data.frame(x=x, y=y1)
: df2-data.frame(x=x, y=y2)
:
: # start list for parameters
: sl-list( d=0, b=10, c1=90, c2=20)
:
: # y1-Analysis - Result: Error in ... singular
: gradient
: nls(y~d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0), data=df1,
: start=sl)
: # y2-Analysis - Result: working...
: nls(y~d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0), data=df2,
: start=sl)
:
: # plots to look at data
: par(mfrow=c(1,2))
: plot(df1$x,df1$y)
: plot(df2$x,df2$y)
:
: Perhaps there is another fitting routine? Can anybody
: help?
:
: Best wishes,
: Karl
:
:
:
:
:
:
: ___
: Bestellen Sie Y! DSL und erhalten Sie die AVM FritzBox SL fr 0.
: Sie sparen 119 und bekommen 2 Monate Grundgebhrbefreiung.
:
: __
: R-help at stat.math.ethz.ch mailing list
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:
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Re: [R] naive question
Douglas Bates bates at stat.wisc.edu writes: : If you are routinely working with very large data sets it would be : worthwhile learning to use a relational database (PostgreSQL, MySQL, : even Access) to store the data and then access it from R with RODBC or : one of the specialized database packages. Along this line, if you have and already know another stat package then you could read the data into that, write it out in that package's format and then read the written out file into R. The R foreign package and the R Hmisc package support a number of such foreign formats. Don't know about speed -- it probably varies by format so you will have to experiment. Not sure what the current status is of HDF5, CDF, netCDF, etc. are for R but those may or may not be formats to consider as well. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] anti-R vitriol
Hi, I wonder, why SAS should be better in time for reading a data in the system. I have an example, that shows that R is (sometimes?, always?) faster. - Data with 14432 observations and 120 variables. Time for reading the data: SAS 8e: data testt; set l1.lse01;run; real time 1.46 seconds cpu time0.18 seconds R 1.9.0: system.time(read.table(lse01.txt,header=T)) [1] 0.63 0.06 6.22 NA NA And this is 2.5 times faster as SAS. (SAS reads the .sas7bdat and R the .txt file) I´m working with SAS (I should working with SAS) and R (I'm going to work with R) on the same Computer. In my examples about time series and in something simple but also time consuming procedures like summaries,... R is always 2 times faster and sometimes 30 times faster (with the same results). I think R is a great software and you can do more things as in SAS. Some new developments in SAS 9, like COM-server to Excel, some new procedures, better graphs, ... is developed and implemented in R for many years ago. Thanks to the R Development Team!!! Matthias -Ursprüngliche Nachricht- Von: Liaw, Andy [mailto:[EMAIL PROTECTED] Gesendet: Dienstag, 29. Juni 2004 20:21 An: 'Barry Rowlingson'; R-help Betreff: RE: [R] anti-R vitriol From: Barry Rowlingson A colleague is receiving some data from another person. That person reads the data in SAS and it takes 30s and uses 64k RAM. That person then tries to read the data in R and it takes 10 minutes and uses a gigabyte of RAM. Person then goes on to say: It's not that I think SAS is such great software, it's not. But I really hate badly designed software. R is designed by committee. Worse, it's designed by a committee of statisticians. They tend to confuse numerical analysis with computer science and don't have any idea about software development at all. The result is R. I do hope [your colleague] won't have to waste time doing [this analysis] in an outdated and poorly designed piece of software like R. Would any of the committee like to respond to this? Or shall we just slap our collective forehead and wonder how someone could get such a view? Barry My $0.02: R, being a flexible programming language, has an amazing ability to cope with people's laziness/ignorance/inelegance, but it comes at a (sometimes hefty) price. While there is no specifics on the situation leading to the person's comments, here's one (not as extreme) example that I happen to come across today: system.time(spam - read.table(data_dmc2003_train.txt, + header=T, + colClasses=c(rep(numeric, 833), + character))) [1] 15.92 0.09 16.80NANA system.time(spam - read.table(data_dmc2003_train.txt, header=T)) [1] 187.29 0.60 200.19 NA NA My SAS ability is rather serverely limited, but AFAIK, one needs to specify _all_ variables to be read into a dataset in order to read in the data in SAS. If one has that information, R can be very efficient as well. Without that information, one gets nothing in SAS, or just let R does the hard work. Best, Andy __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo /r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Large addresses (Rgui.exe editing)
I'm running R under a 32-bit Win2003 Server with 24 Go RAM ... I read the FAQ and found that I have to edit my boot.ini file with the /PAE switch; Done. I noticed also that I have to set the R image header with the flag /LARGEADDRESSAWARE, but to do this I need Microsoft Visual Studio 6.0 software that I do not have ... Because Pr Ripley clearly mentionned the steps to follow in the rw-FAQ, I'm wonderring whether someone has already edited the R executable in that way, and thus could share this new exe file with others ?? Many thanks ! __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] GLM problem
HI, I am a studient, so don't be surprise if my question seems so simple for you... I have a dataframe with 6 qualitative variables divided in 33 modalities, 2 qualitatives variables and 78 lines. I use a glm to know wich variables have interactions... I would like to know if its normal that one (the first in alphabetical order) of the modalities of each qualitatives variable doesn't appear in the results? Here is what i did: glm-glm(data$IP~data$temp*data$fvent*data$dirvent*data$Ensol+data$mois*data$mil, family=gaussian) summary(glm) anova(glm, test=Chisq) thanck you a lot and excuse me again for my little and perhaps simple question muriel varrin (french student in biostatistical) - [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Large addresses (Rgui.exe editing)
It's undesirable to need Visual Studio (I suspect later versions than 6 also work), and Duncan Murdoch wrote some standalone code to do this which he may be willing to share (but he is away until next week). Meanwhile I have put edited .exe's for rw1091 at http://www.stats.ox.ac.uk/pub/RWin/EditedEXEs.zip but will not leave them there for ever. On Wed, 30 Jun 2004, Franck Siclon wrote: I'm running R under a 32-bit Win2003 Server with 24 Go RAM ... I read the FAQ and found that I have to edit my boot.ini file with the /PAE switch; Done. I noticed also that I have to set the R image header with the flag /LARGEADDRESSAWARE, but to do this I need Microsoft Visual Studio 6.0 software that I do not have ... Because Pr Ripley clearly mentionned the steps to follow in the rw-FAQ, I'm wonderring whether someone has already edited the R executable in that way, and thus could share this new exe file with others ?? Many thanks ! -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] GLM problem
On Wed, 30 Jun 2004, Varrin muriel wrote: HI, I am a studient, so don't be surprise if my question seems so simple for you... I have a dataframe with 6 qualitative variables divided in 33 modalities, 2 qualitatives variables and 78 lines. I use a glm to know wich variables have interactions... I would like to know if its normal that one (the first in alphabetical order) of the modalities of each qualitatives variable doesn't appear in the results? Yes. That's the way R codes variables. I'm not going to rewrite the literature here, so please consult a good book (and naturally I will recommend Venables Ripley, 2002). Others may be able to tell you if any of the French guides on CRAN or elsewhere address this point (Emmanuel Paradis's seems not to get that far). Here is what i did: glm-glm(data$IP~data$temp*data$fvent*data$dirvent*data$Ensol+data$mois*data$mil, family=gaussian) Please use something like glm(IP ~ temp+fvent, data=data, family=gaussian) and don't call the result `glm' (or call your data, `data'). Also, this is not a question about GLMs with that family but about linear models, so why not use lm. summary(glm) anova(glm, test=Chisq) thanck you a lot and excuse me again for my little and perhaps simple question muriel varrin (french student in biostatistical) -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] GLM problem
Prof Brian Ripley [EMAIL PROTECTED] writes: and don't call the result `glm' (or call your data, `data'). Also, this is not a question about GLMs with that family but about linear models, so why not use lm. summary(glm) anova(glm, test=Chisq) * And shouldn't this be F? Do you really know that your observations have variance 1? -- O__ Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Question about mesurating time
Hello , Is there any function to mesurate the duration of a procedure (like tic and toc in matlab) ? Tic Source(procedure.R) Toc (toc is the duration between the execution of tic and the execution of toc) Thank you nicolas [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Question about mesurating time
?system.time *** REPLY SEPARATOR *** On 30.06.2004 at 10:59 zze-PELAY Nicolas FTRD/DMR/BEL wrote: Hello , Is there any function to mesurate the duration of a procedure (like tic and toc in matlab) ? Tic Source(procedure.R) Toc (toc is the duration between the execution of tic and the execution of toc) Thank you nicolas [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Question about mesurating time
help.search(time) gives proc.time(base) Running Time of R system.time(base) CPU Time Used both of which could be used. On Wed, 30 Jun 2004, zze-PELAY Nicolas FTRD/DMR/BEL wrote: Is there any function to mesurate the duration of a procedure (like tic and toc in matlab) ? Tic Source(procedure.R) Toc (toc is the duration between the execution of tic and the execution of toc) -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Help!!
Hi! Have you downloaded the package multilevel first? Best wishes, Karl ___ Bestellen Sie Y! DSL und erhalten Sie die AVM FritzBox SL für 0. Sie sparen 119 und bekommen 2 Monate Grundgebührbefreiung. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Installation of R-1.9.1.tgz
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Re: [R] rgl installation problems
On Wed, 2004-06-30 at 00:52, E GCP wrote: Thanks for your replies. I do not HTML-ize my mail, but free email accounts do that and there is not a switch to turn it off. I apologize in advance. I installed R from the redhat package provided by Martyn Plummer. It installed fine and without problems. I can use R and have installed and used other packages within R without any problems whatsoever. I do not think the problem is with R or its installation. I do think there is a problem with the installation of rgl_0.64-13.tar.gz on RedHat 9 (linux). So, if there is anybody out there who has installed succesfully rgl_0.64-13.tar.gz on RedHat 9, I would like to know how. This is a little strange. I'm now building RPMS for older Red Hat versions on FC2 using a tool called Mach. There is a possibility that there is some configuration problem, but I can't see it. As Brian has pointed out, you are missing the crucial -shared flag when building the shared library for rgl. This comes from the line SHLIB_CXXLDFLAGS = -shared in the file /usr/lib/R/etc/Makeconf. This is present in my latest RPM for Red Hat ( R-1.9.1-0.fdr.2.rh90.i386.rpm ) so I don't know why it isn't working for you. Check that you do have the latest RPM and that you don't have a locally built version of R in /usr/local since this will have precedence on your PATH. Martyn __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] rgl installation problems
Martyn Plummer [EMAIL PROTECTED] writes: On Wed, 2004-06-30 at 00:52, E GCP wrote: Thanks for your replies. I do not HTML-ize my mail, but free email accounts do that and there is not a switch to turn it off. I apologize in advance. I installed R from the redhat package provided by Martyn Plummer. It installed fine and without problems. I can use R and have installed and used other packages within R without any problems whatsoever. I do not think the problem is with R or its installation. I do think there is a problem with the installation of rgl_0.64-13.tar.gz on RedHat 9 (linux). So, if there is anybody out there who has installed succesfully rgl_0.64-13.tar.gz on RedHat 9, I would like to know how. This is a little strange. I'm now building RPMS for older Red Hat versions on FC2 using a tool called Mach. There is a possibility that there is some configuration problem, but I can't see it. As Brian has pointed out, you are missing the crucial -shared flag when building the shared library for rgl. This comes from the line SHLIB_CXXLDFLAGS = -shared in the file /usr/lib/R/etc/Makeconf. This is present in my latest RPM for Red Hat ( R-1.9.1-0.fdr.2.rh90.i386.rpm ) so I don't know why it isn't working for you. Check that you do have the latest RPM and that you don't have a locally built version of R in /usr/local since this will have precedence on your PATH. One thing to notice is that rgl does its own configure step (hadn't noticed on my first build since g++ is so noisy about a number of other things), and it is possible that something is getting messed up on E's RH9 system. Redirecting the output as in R CMD INSTALL rgll_0.64-13.tar.gz 21 | tee rgl.log and poring over the result might prove informative. -- O__ Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] anti-R vitriol
I am curious. What were the dimensions of this data set? Did this person know use read.table(), or scan(). Did they know about the possibility of reading the data one part at a time? The way that SAS processes the data row by row limits what can be done. It is often possible with scant loss of information, and more satisfactory, to work with a subset of the large data set or with multiple subsets. Neither SAS (in my somewhat dated experience of it) nor R is entirely satisfactory for this purpose. But at least in R, given a subset that fits so easily into memory that the graphs are not masses of black, there are few logistic problems in doing, rapidly and interactively, a variety of manipulations and plots, with each new task taking advantage of the learning that has gone before. To do that well in the SAS world, it is necessary to use something like JMP or its equivalent in one of the newer modules, which process data in a way that is not all that different from R. I have wondered about possibilities for a suite of functions that would make it easy to process through R data that is stored in one large data set, with a mix of adding a new variable or variables, repeating a calculation on successive subsets of the data, producing predictions or suchlike for separate subsets, etc. Database connections may be the way to go (c.f., the Ripley and Fei Chen paper at ISI 2003), but it might also be useful to have a simple set of functions that would handle some standard requirements. John Maindonald. On 30 Jun 2004, at 8:02 PM, Barry Rowlingson [EMAIL PROTECTED] wrote: A colleague is receiving some data from another person. That person reads the data in SAS and it takes 30s and uses 64k RAM. That person then tries to read the data in R and it takes 10 minutes and uses a gigabyte of RAM. Person then goes on to say: It's not that I think SAS is such great software, it's not. But I really hate badly designed software. R is designed by committee. Worse, it's designed by a committee of statisticians. They tend to confuse numerical analysis with computer science and don't have any idea about software development at all. The result is R. I do hope [your colleague] won't have to waste time doing [this analysis] in an outdated and poorly designed piece of software like R. Would any of the committee like to respond to this? Or shall we just slap our collective forehead and wonder how someone could get such a view? John Maindonald email: [EMAIL PROTECTED] phone : +61 2 (6125)3473fax : +61 2(6125)5549 Centre for Bioinformation Science, Room 1194, John Dedman Mathematical Sciences Building (Building 27) Australian National University, Canberra ACT 0200. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] pca with missing values
I need to perform a principal components analysis on a matrix with missing values. I've searched the R web site but didn't manage to find anything. Any pointers/guidelines are much appreciatted. Angel __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] pca with missing values
On Wed, 30 Jun 2004, Angel Lopez wrote: I need to perform a principal components analysis on a matrix with missing values. I've searched the R web site but didn't manage to find anything. ?princomp has a description of an na.action argument, and help.search(missing values) comes up with several relevant entries. -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nls fitting problems (singularity)
Often when nls doesn't converge there is a good reason for it.
I'm on a very slow internet connection these days and will not be able
to look at the data myself but I ask you to bear in mind that, when
dealing with nonlinear models, there are model/data set combinations for
which there are no parameter estimates.
Gabor Grothendieck wrote:
Have a look at optim (which supports a number of different algorithms via
the method= arg) and segmented in package segmented which does segmented
regression.
For example,
ss - function(par) {
b - par[1]; c1 - par[2]; c2 - par[3]; d - par[4]
x - df1$x; y - df1$y
sum((y - (d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0)))^2)
}
optim(sl,ss)
Karl Knoblick karlknoblich at yahoo.de writes:
:
: Hallo!
:
: I have a problem with fitting data with nls. The first
: example with y1 (data frame df1) shows an error, the
: second works fine.
:
: Is there a possibility to get a fit (e.g. JMP can fit
: also data I can not manage to fit with R). Sometimes I
: also got an error singularity with starting
: parameters.
:
: # x-values
: x-c(-1,5,8,11,13,15,16,17,18,19,21,22)
: # y1-values (first data set)
: y1=c(-55,-22,-13,-11,-9.7,-1.4,-0.22,5.3,8.5,10,14,20)
: # y2-values (second data set)
: y2=c(-92,-42,-15,1.3,2.7,8.7,9.7,13,11,19,18,22)
:
: # data frames
: df1-data.frame(x=x, y=y1)
: df2-data.frame(x=x, y=y2)
:
: # start list for parameters
: sl-list( d=0, b=10, c1=90, c2=20)
:
: # y1-Analysis - Result: Error in ... singular
: gradient
: nls(y~d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0), data=df1,
: start=sl)
: # y2-Analysis - Result: working...
: nls(y~d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0), data=df2,
: start=sl)
:
: # plots to look at data
: par(mfrow=c(1,2))
: plot(df1$x,df1$y)
: plot(df2$x,df2$y)
:
: Perhaps there is another fitting routine? Can anybody
: help?
:
: Best wishes,
: Karl
:
:
:
:
:
:
: ___
: Bestellen Sie Y! DSL und erhalten Sie die AVM FritzBox SL fr 0.
: Sie sparen 119 und bekommen 2 Monate Grundgebhrbefreiung.
:
: __
: R-help at stat.math.ethz.ch mailing list
: https://www.stat.math.ethz.ch/mailman/listinfo/r-help
: PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
:
:
__
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__
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Re: [R] MacOS X binaries won't install
Hi! I'm afraid we need some more bits of information. Do you have administrative privileges?, which version of R are you trying to install?, Have you read the RMacOSX FAQ? On Tue, 29 Jun 2004, Ruben Solis wrote: I've tried installing the MacOS X binaries for R available at: http://www.bioconductor.org/CRAN/ I'm running MacOS X version 10.2.8. I get a message indicating the installation is successful, but when I double-click on the R icon that shows up in my Applications folder, the application seems to try to open but closes immediately. I looked for /Library/Frameworks/R.framework (by typing ls /Library/Frameworks) and it does not appear. A global search for R.framework yields no results, so it seems that the installation is not working. (I was going to try command line execution.) Any help would be appreciated. Thanks! - RSS Ruben S. Solis __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Ulises M. Alvarez LAB. DE ONDAS DE CHOQUE FISICA APLICADA Y TECNOLOGIA AVANZADA UNAM [EMAIL PROTECTED] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nls fitting problems (singularity)
Douglas Bates [EMAIL PROTECTED] writes: Often when nls doesn't converge there is a good reason for it. I'm on a very slow internet connection these days and will not be able to look at the data myself but I ask you to bear in mind that, when dealing with nonlinear models, there are model/data set combinations for which there are no parameter estimates. In this particular case, the model describes a curve consisting of two line segments that meet at the point (b,d) : nls(y~d+(x-b)*c1*(x-b0)+(x-b)*c2*(x-b=0), data=df2, Now if b is between the two smallest x, you can diddle b, c1, and d in such a way that the value at x1 is constant. I.e. the model becomes unidentifiable. Putting trace=T suggests that this is what happens in this example. -- O__ Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] formatting
I could not figure this out from the documentation: is there a way to send formatted non-graphical data to a fancy output device (eg, latex, pdf...) For example, if I want to include the summary of a linear model in a document, I might want to have it automatically texified. Thanks! Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] formatting
[EMAIL PROTECTED] wrote on 30/06/2004 16:05:15: I could not figure this out from the documentation: is there a way to send formatted non-graphical data to a fancy output device (eg, latex, pdf...) For example, if I want to include the summary of a linear model in a document, I might want to have it automatically texified. Have a look at the latex() function in package Hmisc, and/or at package xtable If you want to use R code in a LaTeX document, you can use Sweave; see http://www.ci.tuwien.ac.at/~leisch/Sweave/ HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Principal Surface function help
Dear All Do you know some functions that can perform the PRINCIPAL SURFACE estimation? Please give me a hint. Thanks for your help in advance. Fred [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] outlier tests
I have been learning about some outlier tests -- Dixon and Grubb, specifically -- for small data sets. When I try help.start() and search for outlier tests, the only response I manage to find is the Bonferroni test avaiable from the CAR package... are there any other packages the offer outlier tests? Are the Dixon and Grubb tests good for small samples or are others more recommended? Much thanks in advance, Greg __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] outlier tests
I thought outlier tests were mainly superseded two decades ago by the use
of robust methods -- they certainly were in analytical chemistry, for
example. All outlier tests are bad in the sense that outliers will
damage the results long before they are detected. See e.g.
@Article{AMC.89a,
author = {Analytical Methods Committee},
title= Robust statistics --- how not to reject outliers. {Part}
1. {Basic} concepts,
journal = The Analyst,
volume = 114,
pages= 1693--1697,
year = 1989,
}
On Wed, 30 Jun 2004, Greg Tarpinian wrote:
I have been learning about some outlier tests -- Dixon and Grubb,
specifically -- for small data sets. When I try help.start() and search
for outlier tests, the only response I manage to find is the Bonferroni
test avaiable from the CAR package... are there any other packages the
offer outlier tests?
That's not an outlier test in the sense used by Dixon and Grubb, but is an
illustration of the point about robust methods being better, in this case
protecting better against multiple outliers.
Are the Dixon and Grubb tests good for small samples or are others
more recommended?
--
Brian D. Ripley, [EMAIL PROTECTED]
Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
University of Oxford, Tel: +44 1865 272861 (self)
1 South Parks Road, +44 1865 272866 (PA)
Oxford OX1 3TG, UKFax: +44 1865 272595
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Re: [R] camberra distance?
From Legendre Legendre Numerical Ecology I read: The Australians Lance Williams (1967a) give several variants of the Manhattan metric including their Canberra metric (Lance Williams 1966c) Lance Williams (1967a) Mixed-data classificatory programs I.Agglomerative systems. Aust. Comput.J.1:15-20 Lance Williams 1966c Computer programs for classification. Proc. ANCCAC Conference, Canberra, May 1966, Paper 12/3 HTH, Angel Wolski wrote: Hi! Its not an R specific question but had no idea where to ask elsewhere. Does anyone know the orginal reference to the CAMBERA DISTANCE? Eryk. Ps.: I knew that its an out of topic question (sorry). Can anyone reccomend a mailing list where such questions are in topic? __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html . __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
As far as I know, read.table() in S-plus performs similarly to read.table() in R with respect to speed. So, I wouldn't put high hopes in finding much satisfaction there. I do frequently read large tables in S-plus, and with a considerable amount of work was able to speed things up significantly, mainly by using scan() with appropriate arguments. It's possible that some of the add-on modules for S-plus (e.g., the data-mining module) have faster I/O, but I haven't investigated those. I get the best read performance out of S-plus by using a homegrown binary file format with each column stored in a contiguous block of memory and meta data (i.e., column types and dimensions) stored at the start of the file. The S-plus read function reads the columns one at a time using readRaw(). One would be able to do something similar in R. If you have to read from a text file, then, as others have suggested, writing a C program wouldn't be that hard, as long as you make the format inflexible. -- Tony Plate At Tuesday 06:19 PM 6/29/2004, Igor Rivin wrote: I was not particularly annoyed, just disappointed, since R seems like a much better thing than SAS in general, and doing everything with a combination of hand-rolled tools is too much work. However, I do need to work with very large data sets, and if it takes 20 minutes to read them in, I have to explore other options (one of which might be S-PLUS, which claims scalability as a major , er, PLUS over R). __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
Tony Plate tplate at blackmesacapital.com writes: I get the best read performance out of S-plus by using a homegrown binary file format with each column stored in a contiguous block of memory and meta data (i.e., column types and dimensions) stored at the start of the file. The S-plus read function reads the columns one at a time using readRaw(). One would be able to do something similar in R. If you have to read from a text file, then, as others have suggested, writing a C program wouldn't be that hard, as long as you make the format inflexible. At one time there was a program around (independent of R) that would read in a file in numerous formats including text and write out an R .rda file (among other formats). The .rda file could then be rapidly read into R using the R load command. Unfortunately the author withdrew it and it is no longer available. I suspect that if someone came up with such a program in C code but to keep it simple just restricted it to ASCII input files with a minimum number of data types and .rda or homegrown binary output it would be of general interest to the R community. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Question about plotting related to roll-up
Hello R'ers, I have a large set of data which has many y samples for each unit x. The data might look like: Seconds Response_time -- 0 0.150 0 0.202 0 0.065 1 0.110 1 0.280 2 0.230 2 0.156 3 0.070 3 0.185 3 0.255 3 0.311 3 0.120 4 and so on When I do a basic plot with type=l or the default of points it obviously plots every point. What I would like to do is generate a line plot where the samples for each second are rolled up, averged and plotted with a bar which represents either std dev or some other aspect of variance. Can someone recommend a plotting mechanism to achieve this? I have adding lines using some of the smoothing functions but seem unable to remove the original plot line which is drawn (is there a way to just plot the data as feed through the smoothing function without the original data?). Please remove _nospam from the email address to reply directly to me. Thanks, Coburn Watson Software Performance Engineering DST Innovis __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
Thank you! It's interesting about S-Plus, since they apparently try to support work with much larger data sets by writing everything out to disk (thus getting around the, eg, address space limitations, I guess), so it is a little surprising that they did not tweak the I/O more... Thanks again, Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Mac OS X 10.2.8 versus 10.3.4 package load failure
Hello All, I have built a package depmix and build a source package file from it for distribution. I have done all this on the following platform: platform powerpc-apple-darwin6.8 arch powerpc os darwin6.8 system powerpc, darwin6.8 status major1 minor9.0 year 2004 month04 day 12 language R When I install the package using the menu Packages Install from local file From source package file (tar.gz) the package installs without problems. However when I do the same another MAC OS X (10.2.8), I get the following error message: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library /Users/564/Library/R/library/depmix/libs/depmix.so: dlcompat: dyld: /Library/Frameworks/R.framework/Resources/bin/R.bin Undefined symbols: _btowc _iswctype _mbsrtowcs _towlower _towupper _wcscoll _wcsftime _wcslen _wcsrtombs _wcsxfrm _wctob _wctype _wmemchr _wmemcmp _wmemcpy _wmemm ove _wmemset Error in library(depmix) : .First.lib failed Can anyone help me understand what the problem is here and how to solve it? __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Question about plotting related to roll-up
boxplot(Response_time ~ seconds, data = my.data.frame) Coburn Watson cpwww at comcast.net writes: : : Hello R'ers, : : I have a large set of data which has many y samples for each unit x. The data : might look like: : : Seconds Response_time : -- : 0 0.150 : 0 0.202 : 0 0.065 : 1 0.110 : 1 0.280 : 2 0.230 : 2 0.156 : 3 0.070 : 3 0.185 : 3 0.255 : 3 0.311 : 3 0.120 : 4 : and so on : : When I do a basic plot with type=l or the default of points it obviously plots : every point. What I would like to do is generate a line plot where the : samples for each second are rolled up, averged and plotted with a bar which : represents either std dev or some other aspect of variance. Can someone : recommend a plotting mechanism to achieve this? I have adding lines using : some of the smoothing functions but seem unable to remove the original plot : line which is drawn (is there a way to just plot the data as feed through the : smoothing function without the original data?). : : Please remove _nospam from the email address to reply directly to me. : : Thanks, : : Coburn Watson : Software Performance Engineering : DST Innovis : : __ : R-help at stat.math.ethz.ch mailing list : https://www.stat.math.ethz.ch/mailman/listinfo/r-help : PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html : : __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Mac OS X 10.2.8 versus 10.3.4 package load failure
The problem is that you compiled the code with wide characters, and on your 10.2.8 the support functions are not compiled into the R binary (which is what I would expect). As to why you are getting wide chars, I suggest you ask on the R-SIG-Mac list (https://www.stat.math.ethz.ch/mailman/listinfo/r-sig-mac), as this is very specialized. On Wed, 30 Jun 2004, Ingmar Visser wrote: Hello All, I have built a package depmix and build a source package file from it for distribution. I have done all this on the following platform: platform powerpc-apple-darwin6.8 arch powerpc os darwin6.8 system powerpc, darwin6.8 status major1 minor9.0 year 2004 month04 day 12 language R When I install the package using the menu Packages Install from local file From source package file (tar.gz) the package installs without problems. However when I do the same another MAC OS X (10.2.8), I get the following error message: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library /Users/564/Library/R/library/depmix/libs/depmix.so: dlcompat: dyld: /Library/Frameworks/R.framework/Resources/bin/R.bin Undefined symbols: _btowc _iswctype _mbsrtowcs _towlower _towupper _wcscoll _wcsftime _wcslen _wcsrtombs _wcsxfrm _wctob _wctype _wmemchr _wmemcmp _wmemcpy _wmemm ove _wmemset Error in library(depmix) : .First.lib failed Can anyone help me understand what the problem is here and how to solve it? -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] MacOS X binaries won't install
On Tue, 29 Jun 2004, Ruben Solis wrote: I've tried installing the MacOS X binaries for R available at: http://www.bioconductor.org/CRAN/ I'm running MacOS X version 10.2.8. I get a message indicating the installation is successful, but when I double-click on the R icon that shows up in my Applications folder, the application seems to try to open but closes immediately. I looked for /Library/Frameworks/R.framework (by typing ls /Library/Frameworks) and it does not appear. A global search for R.framework yields no results, so it seems that the installation is not working. (I was going to try command line execution.) Check your log file for related error messages. Can also inspect the package contents to ensure scripts have execute permission as that would also cause the behavior you describe. -- SIGSIG -- signature too long (core dumped) __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Question about plotting related to roll-up
grp - rep(1:5, each=3) resp - rnorm(15) mu - tapply(resp, grp, mean) s - tapply(resp, grp, sd) stopifnot( identical( names(mu), names(s) ) ) LCL - mu - 2*s # lower confidence limit UCL - mu + 2*s Here I choose 2 as we expect 95% of the data to fall under 4 sd. # Type 1 plot(names(mu), mu, type=l, ylim=c( min(LCL), max(UCL) )) lines(names(mu), UCL, lty=3) lines(names(mu), LCL, lty=3) Your group must contain only numeric values. Otherwise, you will need to use a numerical coding followed by mtext() with proper characters. # Type 2 plot(names(mu), mu, type=p, ylim=c( min(LCL), max(UCL) )) arrows( as.numeric(names(mu)), LCL, as.numeric(names(mu)), UCL, code=3, angle=90, length=0.1 ) On Wed, 2004-06-30 at 17:33, Coburn Watson wrote: Hello R'ers, I have a large set of data which has many y samples for each unit x. The data might look like: Seconds Response_time -- 0 0.150 0 0.202 0 0.065 1 0.110 1 0.280 2 0.230 2 0.156 3 0.070 3 0.185 3 0.255 3 0.311 3 0.120 4 and so on When I do a basic plot with type=l or the default of points it obviously plots every point. What I would like to do is generate a line plot where the samples for each second are rolled up, averged and plotted with a bar which represents either std dev or some other aspect of variance. Can someone recommend a plotting mechanism to achieve this? I have adding lines using some of the smoothing functions but seem unable to remove the original plot line which is drawn (is there a way to just plot the data as feed through the smoothing function without the original data?). Please remove _nospam from the email address to reply directly to me. Thanks, Coburn Watson Software Performance Engineering DST Innovis __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
To be careful, there's lots more to I/O than the functions read.table() scan() -- I was only commenting on those, and no inference should be made about other aspects of S-plus I/O based on those comments! I suspect that what has happened is that memory, CPU speed, and I/O speed have evolved at different rates, so what used to be acceptable code in read.table() (in both R and S-plus) is now showing its limitations and has reached the point where it can take half an hour to read in, on a readily-available computer, the largest data table that can be comfortably handled. I'm speculating, but 10 years ago, on a readily available computer, did it take half an hour to read in the largest data table that could be comfortably handled in S-plus or R? People who encounter this now are surprised and disappointed, and IMHO, somewhat justifiably so. The fact that R is an open source volunteer project suggests that the time is ripe for one of those disappointed people to fix the matter and contribute the function read.table.fast()! -- Tony Plate At Wednesday 10:08 AM 6/30/2004, Igor Rivin wrote: Thank you! It's interesting about S-Plus, since they apparently try to support work with much larger data sets by writing everything out to disk (thus getting around the, eg, address space limitations, I guess), so it is a little surprising that they did not tweak the I/O more... Thanks again, Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
I suspect that what has happened is that memory, CPU speed, and I/O speed have evolved at different rates, so what used to be acceptable code in read.table() (in both R and S-plus) is now showing its limitations and has reached the point where it can take half an hour to read in, on a readily-available computer, the largest data table that can be comfortably handled. I'm speculating, but 10 years ago, on a readily available computer, did it take half an hour to read in the largest data table that could be comfortably handled in S-plus or R? I did not use R ten years ago, but reasonable RAM amounts have multiplied by roughly a factor of 10 (from 128Mb to 1Gb), CPU speeds have gone up by a factor of 30 (from 90Mhz to 3Ghz), and disk space availabilty has gone up probably by a factor of 10. So, unless the I/O performance scales nonlinearly with size (a bit strange but not inconsistent with my R experiments), I would think that things should have gotten faster (by the wall clock, not slower). Of course, it is possible that the other components of the R system have been worked on more -- I am not equipped to comment... Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] memory utilization question
Hi, all; I have a question on memory utilization of R. Does R use only RAM memory or can I make it use virtual memory? Currently, I am using Mac OS X 10.3.3 with 1.5 GB RAM. However, I need more memory for some large size problem right now. Thanks in advance, Tae-Hoon Chung, Ph.D Post-doctoral Research Fellow Molecular Diagnostics and Target Validation Division Translational Genomics Research Institute 1275 W Washington St, Tempe AZ 85281 USA Phone: 602-343-8724 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] interval regression
Hi, does anyone have a quick answer to the question of how to carry out interval regression in R. I have found ordered logit and ordered probit as well as multinomial logit etc. The thing is, though, that I want to apply logit/probit to interval-coded data and I know the cell limits which are used to turn the quantitative response into an ordered factor. Hence, it does not make sense to estimate the cell limits (e.g. in zeta for the function polr). Thanks, Thomas Ribarits [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Developing functions
Hi,
I´m new in R. I´m working with similarity coefficients for clustering
items. I created one function (coef), to calculate the coefficients from
two pairs of vectors and then, as an example, the function
simple_matching,
taking a data.frame(X) and using coef in a for cicle.
It works, but I believe it is a bad way to do so (I believe the for cicle
is not necessary). Somebody can suggest anything better.
Thanks
Daniel Rozengardt
coef-function(x1,x2){a-sum(ifelse(x1==1x2==1,1,0));
b-sum(ifelse(x1==1x2==0,1,0));
c-sum(ifelse(x1==0x2==1,1,0));
d-sum(ifelse(x1==0x2==0,1,0));
ret-cbind(a,b,c,d);
ret
}
simple_matching-function(X) {
ret-matrix(ncol=dim(X)[1],nrow=dim(X)[1]);
diag(ret)-1;
for (i in 2:length(X[,1])) {
for (j in i:length(X[,1])) {
vec-coef(X[i-1,],X[j,]);
result-(vec[1]+vec[3])/sum(vec);
ret[i-1,j]-result;
ret[j,i-1]-result}};
ret}
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Re: [R] naive question
[EMAIL PROTECTED] writes: I did not use R ten years ago, but reasonable RAM amounts have multiplied by roughly a factor of 10 (from 128Mb to 1Gb), CPU speeds have gone up by a factor of 30 (from 90Mhz to 3Ghz), and disk space availabilty has gone up probably by a factor of 10. So, unless the I/O performance scales nonlinearly with size (a bit strange but not inconsistent with my R experiments), I would think that things should have gotten faster (by the wall clock, not slower). Of course, it is possible that the other components of the R system have been worked on more -- I am not equipped to comment... I think your RAM calculation is a bit off. in late 1993, 4MB systems were the standard PC, with 16 or 32 MB on high-end workstations. Comparable figures today are probably 256MB for the entry-level PC and a couple GB in the high end. So that's more like a factor of 64. On the other hand, CPU's have changed by more than the clock speed; in particular, the number of clock cycles per FP calculation has decreased considerably and is currently less than one in some circumstances. -- O__ Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of Biostatistics 2200 Cph. N (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] interval regression
I believe from your description that this is interval-censored survival and can be handled by survreg. It would also be very easy to amend polr to do this. On Wed, 30 Jun 2004, Thomas Ribarits wrote: does anyone have a quick answer to the question of how to carry out interval regression in R. I have found ordered logit and ordered probit as well as multinomial logit etc. The thing is, though, that I want to apply logit/probit to interval-coded data and I know the cell limits which are used to turn the quantitative response into an ordered factor. Hence, it does not make sense to estimate the cell limits (e.g. in zeta for the function polr). -- Brian D. Ripley, [EMAIL PROTECTED] Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA) Oxford OX1 3TG, UKFax: +44 1865 272595 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] pca with missing values
Thanks for the pointers. I've read them with care but I don't seem capable of making it work. For example, if I do: data(USArrests) USArrests2-USArrests USArrests2[1,1]-NA princomp(USArrests2, cor = TRUE, na.action = na.omit) I get the error message: Error in cov.wt(z) : x must contain finite values only I've tried changing the 'options' na.action and using other values than na.omit with no success. The only way that I can make it work in some way was if I did: USArrestsNA-na.omit(USArrests) princomp(USArrestsNA, cor = TRUE) I've also obtained the same by giving the correlation matrix instead of the data frame: princomp(covmat=cor(USArrestsNA)) Both solutions do the job by not using the row with the NA. After more reading I thought I would get the same result by doing: princomp(covmat=cor(USArrests2,use=complete.obs)) but the result is slightly different. I can not manage to understand the difference. Can someone give me some more light to keep going? P.S:Using the solution above with na.omit would not be very good in my real world problem because it is relatively common to have an NA in a row. Maybe using princomp(covmat=cor(USArrests2,use=pairwise.complete.obs)) would be a solution but I would like to understand the above before doing this next step. Thanks, Ange Prof Brian Ripley wrote: On Wed, 30 Jun 2004, Angel Lopez wrote: I need to perform a principal components analysis on a matrix with missing values. I've searched the R web site but didn't manage to find anything. ?princomp has a description of an na.action argument, and help.search(missing values) comes up with several relevant entries. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] MacOS X binaries won't install
Sorry, I missed the original message, so piggybacking off of a reply. On Tue, 29 Jun 2004, Ruben Solis wrote: I've tried installing the MacOS X binaries for R available at: http://www.bioconductor.org/CRAN/ I'm running MacOS X version 10.2.8. Since this is coming out of our mirror (bioconductor), I'm curious if the same problem occurs with the packages available at the other mirrors, or if this is specific to the BioC mirror? Thanks -J __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] spam warning
hi chaps: I just found out that this R post list is actively harvested by some spammers. I used this account exclusively for r-help posts, and promptly received a nice email with links to nigeria, india, and china. this is not a good thing. can we obfuscate the email addresses of posters, so that at least automatic harvesting won't work? sincerely, /ivo welch --- ivo welch professor of finance and economics brown / nber / yale __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] Developing functions
Without trying to understand your code in detail let me just
assume you are trying to create a matrix, ret, whose i,j-th
entry is some function, f, of row i of X and row j of X.
In that case this should do it:
apply(X,1,function(x)apply(X,1,function(y)f(x,y)))
Date: Wed, 30 Jun 2004 15:28:47 -0300 (ART)
From: [EMAIL PROTECTED]
To: [EMAIL PROTECTED]
Subject: [R] Developing functions
Hi,
I´m new in R. I´m working with similarity coefficients for clustering
items. I created one function (coef), to calculate the coefficients from
two pairs of vectors and then, as an example, the function
simple_matching,
taking a data.frame(X) and using coef in a for cicle.
It works, but I believe it is a bad way to do so (I believe the for cicle
is not necessary). Somebody can suggest anything better.
Thanks
Daniel Rozengardt
coef-function(x1,x2){a-sum(ifelse(x1==1x2==1,1,0));
b-sum(ifelse(x1==1x2==0,1,0));
c-sum(ifelse(x1==0x2==1,1,0));
d-sum(ifelse(x1==0x2==0,1,0));
ret-cbind(a,b,c,d);
ret
}
simple_matching-function(X) {
ret-matrix(ncol=dim(X)[1],nrow=dim(X)[1]);
diag(ret)-1;
for (i in 2:length(X[,1])) {
for (j in i:length(X[,1])) {
vec-coef(X[i-1,],X[j,]);
result-(vec[1]+vec[3])/sum(vec);
ret[i-1,j]-result;
ret[j,i-1]-result}};
ret}
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Re: [R] naive question
[EMAIL PROTECTED] writes: I did not use R ten years ago, but reasonable RAM amounts have multiplied by roughly a factor of 10 (from 128Mb to 1Gb), CPU speeds have gone up by a factor of 30 (from 90Mhz to 3Ghz), and disk space availabilty has gone up probably by a factor of 10. So, unless the I/O performance scales nonlinearly with size (a bit strange but not inconsistent with my R experiments), I would think that things should have gotten faster (by the wall clock, not slower). Of course, it is possible that the other components of the R system have been worked on more -- I am not equipped to comment... I think your RAM calculation is a bit off. in late 1993, 4MB systems were the standard PC, with 16 or 32 MB on high-end workstations. I beg to differ. In 1989, Mac II came standard with 8MB, NeXT came standard with 16MB. By 1994, 16MB was pretty much standard on good quality (= Pentium, of which the 90Mhz was the first example) PCs, with 32Mb pretty common (though I suspect that most R/S-Plus users were on SUNs, which were somewhat more plushly equipped). Comparable figures today are probably 256MB for the entry-level PC and a couple GB in the high end. So that's more like a factor of 64. On the other hand, CPU's have changed by more than the clock speed; in particular, the number of clock cycles per FP calculation has decreased considerably and is currently less than one in some circumstances. I think that FP performance has increased more than integer performance, which has pretty much kept pace with the clock speed. The compilers have also improved a bit... Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] naive question
It is amazing the amount of time that has been spent on this issue. In most cases, if you do some timing studies using 'scan', you will find that you can read some quite large data structures in a reasonable time. If you initial concern was having to wait 10 minutes to have your data read in, you could have read in quite a few data sets by now. When comparing speeds/feeds of processors, you also have to consider what it being done on them. Back in the dark ages we had a 1 MIP computer with 4M of memory handling input from 200 users on a transaction system. Today I need a 1GHZ computer with 512M to just handle me. Now true, I am doing a lot different processing on it. With respect to I/O, you have to consider what is being read in and how it is converted. Each system/program has different requirements. I have some applications (running on a laptop) that can read in approximately 100K rows of data per second (of course they are already binary). On the other hand, I can easily slow that down to 1K rows per second if I do not specify the correct parameters to 'read.table'. So go back and take a look at what you are doing, and instrument your code to see where time is being spent. The nice thing about R is that there are a number of ways of approaching a solution and it you don't like the timing of one way, try another. That is half the fun of using R. __ James HoltmanWhat is the problem you are trying to solve? Executive Technical Consultant -- Office of Technology, Convergys [EMAIL PROTECTED] +1 (513) 723-2929 [EMAIL PROTECTED] mple.eduTo: [EMAIL PROTECTED] Sent by: cc: [EMAIL PROTECTED], [EMAIL PROTECTED] [EMAIL PROTECTED], [EMAIL PROTECTED] ath.ethz.ch Subject: Re: [R] naive question 06/30/2004 16:25 [EMAIL PROTECTED] writes: I did not use R ten years ago, but reasonable RAM amounts have multiplied by roughly a factor of 10 (from 128Mb to 1Gb), CPU speeds have gone up by a factor of 30 (from 90Mhz to 3Ghz), and disk space availabilty has gone up probably by a factor of 10. So, unless the I/O performance scales nonlinearly with size (a bit strange but not inconsistent with my R experiments), I would think that things should have gotten faster (by the wall clock, not slower). Of course, it is possible that the other components of the R system have been worked on more -- I am not equipped to comment... I think your RAM calculation is a bit off. in late 1993, 4MB systems were the standard PC, with 16 or 32 MB on high-end workstations. I beg to differ. In 1989, Mac II came standard with 8MB, NeXT came standard with 16MB. By 1994, 16MB was pretty much standard on good quality (= Pentium, of which the 90Mhz was the first example) PCs, with 32Mb pretty common (though I suspect that most R/S-Plus users were on SUNs, which were somewhat more plushly equipped). Comparable figures today are probably 256MB for the entry-level PC and a couple GB in the high end. So that's more like a factor of 64. On the other hand, CPU's have changed by more than the clock speed; in particular, the number of clock cycles per FP calculation has decreased considerably and is currently less than one in some circumstances. I think that FP performance has increased more than integer performance, which has pretty much kept pace with the clock speed. The compilers have also improved a bit... Igor __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] rgl installation problems
Thanks. Adding the -shared to the Makeconf file fixed the problem. I installed R from R-1.9.1-0.fdr.2.rh90.i386.rpm , but for some reason the flag to share libraries was never set in SHLIB_CXXLDFLAGS. rgl_0.64-13.tar.gz now installed without problems. Thanks again, Enrique On Wed, 2004-06-30 at 00:52, E GCP wrote: Thanks for your replies. I do not HTML-ize my mail, but free email accounts do that and there is not a switch to turn it off. I apologize in advance. I installed R from the redhat package provided by Martyn Plummer. It installed fine and without problems. I can use R and have installed and used other packages within R without any problems whatsoever. I do not think the problem is with R or its installation. I do think there is a problem with the installation of rgl_0.64-13.tar.gz on RedHat 9 (linux). So, if there is anybody out there who has installed succesfully rgl_0.64-13.tar.gz on RedHat 9, I would like to know how. This is a little strange. I'm now building RPMS for older Red Hat versions on FC2 using a tool called Mach. There is a possibility that there is some configuration problem, but I can't see it. As Brian has pointed out, you are missing the crucial -shared flag when building the shared library for rgl. This comes from the line SHLIB_CXXLDFLAGS = -shared in the file /usr/lib/R/etc/Makeconf. This is present in my latest RPM for Red Hat ( R-1.9.1-0.fdr.2.rh90.i386.rpm ) so I don't know why it isn't working for you. Check that you do have the latest RPM and that you don't have a locally built version of R in /usr/local since this will have precedence on your PATH. __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] linear models and colinear variables...
Hi! I'm having some issues on both conceptual and technical levels for selecting the right combination of variables for this model I'm working on. The basic, all inclusive form looks like lm(mic ~ B * D * S * U * V * ICU) Where mic, U, V, and ICU are numeric values and B D and S are factors with about 16, 16 and 2 levels respectively. In short, there's a ton of actual explanatory variables that look something like this: Bstaph.aureus:Dvan:Sr:U:ICU There are a good number of hits but there's also a staggering number of complete misses, due to a combination of scare data in that particular niche and actual lack of deviation from the categorical mean. My suspicion is that there's a large degree of colinearity in some of these variables that serves to reduce the total effect of either of a nearly colinear pair to an insignificant level; my hope is that removing one of a mostly colinear group would allow the other variables' possibly significant effects to be measured. Question 1) Is this legitimate at all? Can I do regression using the entire data set over only selected factors while ignoring others? (Admittedly I only just got my Bachelor's in math; the gaps in my knowlege here are profound and aggravating.) Question 2) How do I go about selecting possible colinear explanatory variables? I had originally thought I'd just make a matrix of coefficients of colinearity for each pair of variables and iteratively re-run the model until I got the results I wanted, but I can't really figure out how to do this. In addition, I'm not sure how to do this in the model syntax once I've actually decided on some variables to exclude. For instance, supposing I wanted to run the model as above without the variable Bstaph.aureus:Dvan:Sr:U:ICU. What I tried was lm(mic ~ B * D * S * U * V * ICU - Bstaph.aureus:Dvan:Sr:U:ICU). Obviously this doesn't work because the variable name Bstaph.aureus:Dvan:Sr:U:ICU hasn't been recognized yet. How do I do this? My best guess so far is to build and define each of the variables like Bstaph.aureus:Dvan:Sr:U:ICU by hand with some imperative/iterative style programming using some kind of string generation system. This sounds like a royal pain, and is something I'd rather avoid doing if at all possible. Any suggestions? :-D -petertgaffney __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] R can find some functions in assist package
I am a new user to R. I installed and loaded the smoothing spline package called assist. The function ssr seems to work, but predict.ssr and some others don't seem to be available, I get a can't find message. But they appear in the extensions folder, c:program files\R\rw1091\library\assist\R-ex. What's wrong? __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] linear models and colinear variables...
On 06/30/04 16:32, Peter Gaffney wrote: Hi! I'm having some issues on both conceptual and technical levels for selecting the right combination of variables for this model I'm working on. The basic, all inclusive form looks like lm(mic ~ B * D * S * U * V * ICU) When you do this, you are including all the interaction terms. The * indicates an interaction, as opposed to +. That might make sense unders some circumstances, for example if you are just trying to get the best model and you plan to eliminate higher-order interactions that are not significant, but usually it does more to obscure the interesting effects than to display them. My suspicion is that there's a large degree of colinearity in some of these variables that serves to reduce the total effect of either of a nearly colinear pair to an insignificant level; my hope is that removing one of a mostly colinear group would allow the other variables' possibly significant effects to be measured. There may be colinearity, but the most likely problem is that you are including too many interactions, at too high a level. Inclusion of nonsignificant interaction terms often turns significant main effects into nonsignificant effects. Question 1) Is this legitimate at all? Can I do regression using the entire data set over only selected factors while ignoring others? (Admittedly I only just got my Bachelor's in math; the gaps in my knowlege here are profound and aggravating.) If you select predictors on the basis of which ones are significant, then the final significance levels don't mean much, usually. Remember, 1 out of 20 will be significant at .05 even if you are using random numbers. Question 2) How do I go about selecting possible colinear explanatory variables? If there is colinearity, then what to do about it depends on the substance of the questions you are asking. Some options are to combine variables, do some sort of factor analysis and use factors rather than variables as predictors, use the most meaningful of the variables that are colinear, or just live with it, if the substantive issues rule out the other options. (I'm sure there are other solutions that others might point out.) I had originally thought I'd just make a matrix of coefficients of colinearity for each pair of variables and iteratively re-run the model until I got the results I wanted, but I can't really figure out how to do this. In addition, I'm not sure how to do this in the model syntax once I've actually decided on some variables to exclude. For instance, supposing I wanted to run the model as above without the variable Bstaph.aureus:Dvan:Sr:U:ICU. What I tried was lm(mic ~ B * D * S * U * V * ICU - Bstaph.aureus:Dvan:Sr:U:ICU). Obviously this doesn't work because the variable name Bstaph.aureus:Dvan:Sr:U:ICU hasn't been recognized yet. How do I do this? My best guess so far is to Not clear what you mean here. build and define each of the variables like Bstaph.aureus:Dvan:Sr:U:ICU by hand with some imperative/iterative style programming using some kind of string generation system. This sounds like a royal pain, and is something I'd rather avoid doing if at all possible. Any suggestions? :-D -petertgaffney Jon -- Jonathan Baron, Professor of Psychology, University of Pennsylvania Home page:http://www.sas.upenn.edu/~baron R search page:http://finzi.psych.upenn.edu/ __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] help with tclVar
Hi, I can' t load a variable tcltk declared with tclVar, why is this?, the
exmple above explain me ,Thanks Ruben
a-tclVar(init=)
f-function(){
+ a-pipo
+ }
f()
a
[1] pipo
tclvalue(a)
Error in structure(.External(dotTcl, ..., PACKAGE = tcltk), class =
tclObj) :
[tcl] can't read pipo: no such variable.
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[R] R can't find some functions in assist package
Oh yes. The load package under the packages menu in the Windows version does that. To check I typed library(assist) after starting R. Same behavior, ssr is found, but others like predict.ssr, and plot.ssr, give a not found message. Thanks for the suggestion. Mike __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] MS OLAP -- RODBC to SQL Server Slice Server pass-through query to MS OLAP
Olivier Collignon wrote: I have been doing data analysis/modeling in R, connecting to SQL databases with RODBC (winXP client with R1.9.0 and win2k SQL server 2000). I am now trying to leverage some of the OLAP features to keep the data intensive tasks on the DB server side and only keep the analytical tasks within R (optimize use of memory). Is there any package that would allow to connect to OLAP cubes (as a client to SQL Analysis Services PivotTable Service) from an R session (similar to the RODBC package)? Can this be done directly with special connection parameters (from R) through the RODBC package or do I have to setup an intermediary XL table (pivottable linked to the OLAP cube) and then connect to the XL data source from R? I would appreciate any reference / pointer to OLAP/R configuration instructions. Thanks. Olivier Collignon OLAP = On-line Analytical Processing == Using a cube / hypercube of data for decision support (usually extracted from an transaction processing system) Direct connection to Microsoft OLAP server (Analysis Services) requires and OLE DB provider rather than an ODBC connection -- so RODBC cannot be used directly (querying an OLAP cube rather than a SQL table requires MDX instead of SQL queries). One way to use RODBC to query MS OLAP cube is to use SQL Server as a Slice Server. You could slice three different planes (tables) out of a 3-D cube. For example, if you had a cube that Financial Data by Company by Year. The three planes (tables) would be: 1. Financial statements -- financial line items for one company (Balance Sheet, Income Statement) 2. Time Series -- One or more line items over time (forecasting) 3. Cross-sectional -- One line item for all companies (useful for ranking) Microsoft OLAP Analysis Services is bundled with (on the same CD-ROM as) MS SQL server, so licensing should not be an issue Although I have figured out this is possible (and implemented a similar system many years ago in a long forgotten language), I haven't built an MS OLAP cube yet -- so I haven't tested it. The following is summarized from Mary Chipman's and Andy Baron's, Microsoft Access Guide to SQL Server, chapter 12, pages 644-654. SQL Server is capable of sending pass through queries for execution on another data base (using the foreign data base's syntax). That way MDX is executed on the OLAP server, and not locally in SQL Server. Chipman Baron, p. 645 -- which would accomplish your objective of [Keeping] the data intensive tasks on the DB server side. Although you can use the MS SQL OPENROWSET() function to set up an ad hoc connection, the recommended method would be two steps: 1. Set up a Linked Server using either MS SQL Enterprise Manager or MS SQL system stored procedure EXEC sp_addlinkedserver. 2. Use an OPENQUERY() function (which works with any OLE DB data source) to pass the MDX query and return a resultset. The OPENQUERY function can be used in the FROM clause of a SQL query, a stored procedure or in MS SQL 2000 a User Defined Function (UDF). Also note, A view created using the OPENQUERY syntax cannot be used [without renaming (aliasing) the columns using 'AS'] as the RecordSource for a report Chipman Baron, op. cit. page 647. MDX concatenates the dimension names with periods -- and that does not conform to the column naming conventions of either MS SQL Server or MS Access. Unfortunately, that's too much information for the R list and not enough for you, so I strongly recommend the full explanation and examples in Chapter 12 of Chipman Baron. Ideally, one would like an R interface to map an multidimensional array directly from OLAP to an R data structure such as an R matrix or an R data frame similar to RPgSQL -- until then, use a slice server... Jim Callahan, MBA MCDBA Management, Budget Accounting City of Orlando (407) 246-3039 office [[alternative HTML version deleted]] __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] R can't find some functions in assist package
Oh yes. The load package under the packages menu in the Windows version does that. To check I typed library(assist) after starting R. Same behavior, ssr is found, but others like predict.ssr, and plot.ssr, give a not found message. Short answer: Try using predict instead of predict.ssr. I think you're meant to quietly use the predict and plot methods provided, and not mention their inner names. Long answer: Namespaces. This means that a method for an object isn't visible to R as a whole. This avoids conflics should another package pick the same names. Does this work? getAnywhere(predict.ssr) Cheers Jason __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] R can't find some functions in assist package
That's because `assist' has a namespace: library(assist) Loading required package: nlme predict.ssr Error: Object predict.ssr not found methods(predict) [1] predict.ar*predict.Arima* [3] predict.arima0*predict.glm [5] predict.gls* predict.gnls* [7] predict.HoltWinters* predict.lm [9] predict.lme* predict.lmList* [11] predict.loess* predict.mlm [13] predict.nlme* predict.nls* [15] predict.poly predict.ppr* [17] predict.princomp* predict.slm* [19] predict.smooth.spline* predict.smooth.spline.fit* [21] predict.snm* predict.snr* [23] predict.ssr* predict.StructTS* Non-visible functions are asterisked Use either assist:::predict.ssr or getAnywhere(predict.ssr). Andy From: Michael Axelrod Oh yes. The load package under the packages menu in the Windows version does that. To check I typed library(assist) after starting R. Same behavior, ssr is found, but others like predict.ssr, and plot.ssr, give a not found message. Thanks for the suggestion. Mike __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] R can't find some functions in assist package
An R-News or J. of Statistical Software note titled, Getting to the Source of the Problem detailing the basic strategies for these adventures in the new world of S4 methods and namespaces would be very useful. url:www.econ.uiuc.edu/~rogerRoger Koenker email [EMAIL PROTECTED] Department of Economics vox:217-333-4558University of Illinois fax:217-244-6678Champaign, IL 61820 On Jun 30, 2004, at 8:03 PM, Liaw, Andy wrote: That's because `assist' has a namespace: library(assist) Loading required package: nlme predict.ssr Error: Object predict.ssr not found methods(predict) [1] predict.ar*predict.Arima* [3] predict.arima0*predict.glm [5] predict.gls* predict.gnls* [7] predict.HoltWinters* predict.lm [9] predict.lme* predict.lmList* [11] predict.loess* predict.mlm [13] predict.nlme* predict.nls* [15] predict.poly predict.ppr* [17] predict.princomp* predict.slm* [19] predict.smooth.spline* predict.smooth.spline.fit* [21] predict.snm* predict.snr* [23] predict.ssr* predict.StructTS* Non-visible functions are asterisked Use either assist:::predict.ssr or getAnywhere(predict.ssr). Andy From: Michael Axelrod Oh yes. The load package under the packages menu in the Windows version does that. To check I typed library(assist) after starting R. Same behavior, ssr is found, but others like predict.ssr, and plot.ssr, give a not found message. Thanks for the suggestion. Mike __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
RE: [R] Developing functions
From: [EMAIL PROTECTED]
Hi,
I´m new in R. I´m working with similarity coefficients for clustering
items. I created one function (coef), to calculate the
coefficients from
two pairs of vectors and then, as an example, the function
simple_matching,
taking a data.frame(X) and using coef in a for cicle.
It works, but I believe it is a bad way to do so (I believe
the for cicle
is not necessary). Somebody can suggest anything better.
Thanks
Daniel Rozengardt
coef-function(x1,x2){a-sum(ifelse(x1==1x2==1,1,0));
b-sum(ifelse(x1==1x2==0,1,0));
c-sum(ifelse(x1==0x2==1,1,0));
d-sum(ifelse(x1==0x2==0,1,0));
ret-cbind(a,b,c,d);
ret
}
simple_matching-function(X) {
ret-matrix(ncol=dim(X)[1],nrow=dim(X)[1]);
diag(ret)-1;
for (i in 2:length(X[,1])) {
for (j in i:length(X[,1])) {
vec-coef(X[i-1,],X[j,]);
result-(vec[1]+vec[3])/sum(vec);
ret[i-1,j]-result;
ret[j,i-1]-result}};
ret}
A few comments first:
1. Unless you are putting multiple statements on the same line, there's no
need to use ;.
2. In `coef' (which is a bad choice for a function name: There's a built-in
generic function by that name in R, for extracting coefficients from fitted
model objects), a, b, c and d are scalars. You don't need to cbind() them;
c() works just fine.
3. One of the best strategies for efficiency is to vectorize. Try to
formulate the problem in matrix/vector operations as much as possible.
4. The computation looks a bit odd to me. Assuming the data are binary
(i.e., all 0s and 1s), you are computing (N11 + N01) / N, where N is the
length of the vectors, N11 is the number of 1-1 matches and N01 is the
number of 0-1 matches. Are you sure that's what you want to compute?
Here's what I'd do (assuming the input matrix contains all 0s and 1s):
simple_matching - function(X) {
N11 - crossprod(t(X))
N01 - crossprod(t(X), t(1-X))
ans - (N11 + N01) / ncol(X)
diag(ans) - 1
ans
}
HTH,
Andy
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[R] failure notice
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[R] .Net Mono language news: C, C++, C#, Java, Python Perl
For those interested in experimenting with (compiling / developing) a version of R for the Common Language Runtime (CLR) environment (Microsoft .Net, Novell Ximan Mono DotGNU) -- a few links to some free compliers: C DotGNU (the official GNU project) http://dotgnu.org/ http://www.southern-storm.com.au/pnet_faq.html#q1_7 FAQ 1.7. What is pnetC? Since version 0.4.4 of DotGNU Portable.NET, the cscc compiler has had support for compiling C programs. The companion libc implementation for the C compiler is called 'pnetC'. The code is based on glibc. === C lcc -- lcc is a retargetable compiler for Standard C. lcc.NET, an lcc 4.2 backend for MSIL According to DotGNU [MSIL] is exactly the same as CIL, but some media reports have called it 'MSIL' for some reason. http://www.cs.princeton.edu/software/lcc/ 1. LCC 4.2 has been recently released. This release adds support for compiling ANSI C programs to CIL. Note that the CIL support only works on Win32 right now, but should be easy to convert to Mono/other architectures. 2. LCC is not an open source compiler, but it is free as long as you do not profit from selling it. C# (C-sharp) Mono C# (version 1.0 released today) http://www.mono-project.com/using/relnotes/1.0.html === C++ Microsoft's C++ -- a free download (free as in beer) http://www.microsoft.com/downloads/details.aspx?FamilyId=272BE09D-40BB-49FD-9CB0-4BFA122FA91Bdisplaylang=en 1. Visual C++ Toolkit 2003 The Microsoft Visual C++ Toolkit 2003 includes the core tools developers need to compile and link C++-based applications for Windows and the .NET Common Language Runtime ? compiler, linker, libraries, and sample code. 2. The Visual C++ Toolkit is a free edition of Microsoft?s professional Visual C++ optimizing compiler and standard libraries ? the same optimizing compiler and standard libraries that ship in Visual Studio .NET 2003 Professional! 3. Are there any restrictions on how I use the Visual C++ Toolkit? In general, no. You may use the Toolkit to build C++ -based applications, and you may redistribute those applications. Please read the End User License Agreement (EULA), included with the Toolkit, for complete details. === FORTRAN No free news -- so I guess it is F2C. Lahey Salford have commercial Fortran compliers. === JAVA (useful for Omegahat) IKVM - a CLR implementation of a language compatible with the Java syntax that be used with GNU Classpath and IBM Jikes http://www.ikvm.net/ === PERL PerlSharp http://taubz.for.net/code/perlsharp/ 1. By Joshua Tauberer. PerlSharp is a .NET binding to the Perl interpreter. It allows .NET programs to embed Perl scripts and manipulate Perl data. Perl version 5.8.0 or later on a Unix-like system is required (thus you need Mono). 2. The current release was built on 4/11/2004. This is the first release, so I wouldn't place bets on it actually working out of the box. It is released under the GPL. === PYTHON Python.NET (from http://www.go-mono.com/languages.html#python) Brian Lloyd is working on linking the Python runtime with the .NET runtime. More information on the PS.NET project http://www.zope.org/Members/Brian/PythonNet http://zope.org/Members/Brian/PythonNet/README.html 1. This package does not implement Python as a first-class CLR language - it does not produce managed code (IL) from Python code. Rather, it is an integration of the C Python engine with the .NET runtime. This approach allows you to use CLR services and continue to use existing Python C extensions while maintaining native execution speeds for Python code. 2. While a solution like Jython provides 'two-way' interoperability, this package only provides 'one-way' integration. Meaning, while Python can use types and services implemented in .NET, managed code cannot generally use classes implemented in Python. 3. Python for .NET is based on Python 2.3.2. Note that this is a change from the preview releases, which were based on Python 2.2. === also PYTHON -- Iron Python Jim Hugunin (author of JPython/Jython and Numeric Python/NumPy) is developing IronPython: A fast Python implementation for .NET and Mono. http://ironpython.com/ === Note: According to DotGNU -- IL, CIL MSIL all refer to the bytecode format that is used to represent compiled programs http://www.southern-storm.com.au/pnet_faq.html#q1_9 Why CLR? 1. Cross-language 2. Cross-platform (Mono, DotGNU) -- Linux, Windows OS X 3. Database access -- ADO.Net Provider Factory Mono ships with support for Postgres, MySql, Sybase, DB2, SqlLite, Tds (SQL server protocol) and Oracle databases. - Mono.Data.SqliteClient.dll: Sqlite database provider. - Mono.Data.SybaseClient.dll: Sybase database provider. - Mono.Data.TdsClient.dll: MS SQL server provider. - Mono.Data.Tds.dll: MS SQL server provider. - ByteFX.Data.dll: MySQL client access library (LGPL) - Npgsql.dll: Postgresql client access library (LGPL) http://www.mono-project.com/about/faq.html Jim Callahan Management,
[R] how to drop rows from a data.frame
here is a snippet of data where I would like to drop all rows that have zeros across them, and keep the rest of the rows while maintaining the row names (1,2,3, ...10). The idea here is that a row of zeros is an indication that the row must be dropped. There will never be the case where there is a row(of n columns) with less than 5 zeros in this case(n zeros I am unsure how to manipulate the data frame to drop rows whiles keeping row names. Peter the data (imagine separated by tabs): SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 [4,] 0.0. 0. 0. 0. [5,] 0.0. 0. 0. 0. [6,] 0.0. 0. 0. 0. [7,] 0.0. 0. 0. 0. [8,] 257. 257. 257. 257. 257. [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 [10,] 0.0. 0. 0. 0. what I want it to look like: SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 [8,] 257. 257. 257. 257. 257. [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to drop rows from a data.frame
On Wed, 30-Jun-2004 at 11:57PM -0400, Peter Wilkinson wrote: | here is a snippet of data where I would like to drop all rows that have | zeros across them, and keep the rest of the rows while maintaining the row | names (1,2,3, ...10). The idea here is that a row of zeros is an indication | that the row must be dropped. There will never be the case where there is a | row(of n columns) with less than 5 zeros in this case(n zeros | | I am unsure how to manipulate the data frame to drop rows whiles keeping | row names. | | Peter | | the data (imagine separated by tabs): | |SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 | [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 | [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 | [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 | [4,] 0.0. 0. 0. 0. | [5,] 0.0. 0. 0. 0. | [6,] 0.0. 0. 0. 0. | [7,] 0.0. 0. 0. 0. | [8,] 257. 257. 257. 257. 257. | [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 | [10,] 0.0. 0. 0. 0. I'm curious to know how you got those row names. I suspect you really have a matrix. If it were a dataframe, it would behave exactly how you are reqesting -- depending on how you got rid of rows 4:7. Try as.data.frame(whatever.your.data.is.now) Then deleting the rows will look like: SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 1 256.1139 256.1139 256.1139 256.1139 256.1139 2 283.0741 695.1000 614.5117 453.0342 500.1436 3 257.3578 305.0818 257.3578 257.3578 257.3578 8 257. 257. 257. 257. 257. 9 305.7857 2450.0417 335.5428 305.7857 584.2485 HTH -- Patrick Connolly HortResearch Mt Albert Auckland New Zealand Ph: +64-9 815 4200 x 7188 ~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~ I have the world`s largest collection of seashells. I keep it on all the beaches of the world ... Perhaps you`ve seen it. ---Steven Wright ~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~ __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to drop rows from a data.frame
You right its a matrix (I ran an is.matrix() on my object). Thanks, Peter At 12:13 AM 7/1/2004, Patrick Connolly wrote: On Wed, 30-Jun-2004 at 11:57PM -0400, Peter Wilkinson wrote: | here is a snippet of data where I would like to drop all rows that have | zeros across them, and keep the rest of the rows while maintaining the row | names (1,2,3, ...10). The idea here is that a row of zeros is an indication | that the row must be dropped. There will never be the case where there is a | row(of n columns) with less than 5 zeros in this case(n zeros | | I am unsure how to manipulate the data frame to drop rows whiles keeping | row names. | | Peter | | the data (imagine separated by tabs): | |SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 | [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 | [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 | [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 | [4,] 0.0. 0. 0. 0. | [5,] 0.0. 0. 0. 0. | [6,] 0.0. 0. 0. 0. | [7,] 0.0. 0. 0. 0. | [8,] 257. 257. 257. 257. 257. | [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 | [10,] 0.0. 0. 0. 0. I'm curious to know how you got those row names. I suspect you really have a matrix. If it were a dataframe, it would behave exactly how you are reqesting -- depending on how you got rid of rows 4:7. Try as.data.frame(whatever.your.data.is.now) Then deleting the rows will look like: SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 1 256.1139 256.1139 256.1139 256.1139 256.1139 2 283.0741 695.1000 614.5117 453.0342 500.1436 3 257.3578 305.0818 257.3578 257.3578 257.3578 8 257. 257. 257. 257. 257. 9 305.7857 2450.0417 335.5428 305.7857 584.2485 HTH -- Patrick Connolly HortResearch Mt Albert Auckland New Zealand Ph: +64-9 815 4200 x 7188 ~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~ I have the world`s largest collection of seashells. I keep it on all the beaches of the world ... Perhaps you`ve seen it. ---Steven Wright ~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~.~ __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to drop rows from a data.frame
Assuming all the entries are non-negative and non-NA this will do it: DF[rowSums(DF) 0,] Peter Wilkinson pwilkinson at videotron.ca writes: : : here is a snippet of data where I would like to drop all rows that have : zeros across them, and keep the rest of the rows while maintaining the row : names (1,2,3, ...10). The idea here is that a row of zeros is an indication : that the row must be dropped. There will never be the case where there is a : row(of n columns) with less than 5 zeros in this case(n zeros : : I am unsure how to manipulate the data frame to drop rows whiles keeping : row names. : : Peter : : the data (imagine separated by tabs): : :SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 : [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 : [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 : [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 : [4,] 0.0. 0. 0. 0. : [5,] 0.0. 0. 0. 0. : [6,] 0.0. 0. 0. 0. : [7,] 0.0. 0. 0. 0. : [8,] 257. 257. 257. 257. 257. : [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 : [10,] 0.0. 0. 0. 0. : : what I want it to look like: : :SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 : [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 : [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 : [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 : [8,] 257. 257. 257. 257. 257. : [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] drop rows
his ... h looks like your working with microarray data as well The actual matrix that I am working with is 19000 x 340 Thanks for the help, that was perfect. I am still getting used to the R language way of doing things.I will look into the apply function as you have written it. Peter At 12:22 AM 7/1/2004, Erin Hodgess wrote: Hi Peter! Here is an example: x [,1][,2][,3] [,4][,5] [1,] 2.1632497 0.43219960 0.05329827 0.1484550 2.12996660 [2,] 0.000 0. 0. 0.000 0. [3,] -1.2230673 0.83467155 -0.14820752 -0.1012919 -0.04410457 [4,] -0.5397403 0.92664487 -0.30390539 0.3105849 -0.69958321 [5,] 1.0112805 1.13063148 -1.59802451 0.7597861 -0.72821421 [6,] -1.1170756 -0.05128944 0.02755781 -0.8896866 0.12294861 [7,] 0.000 0. 0. 0.000 0. [8,] 0.7043937 0.82557039 -1.38759266 0.5266536 0.67345991 [9,] 0.7522765 0.25513348 -1.00076227 0.1141770 1.70003769 [10,] 0.3371948 -1.48590028 -0.67115529 -0.8242699 1.32741665 #This takes out the rows with ANY zeros x[!apply(x,1,function(x)any(x)==0),] [,1][,2][,3] [,4][,5] [1,] 2.1632497 0.43219960 0.05329827 0.1484550 2.12996660 [2,] -1.2230673 0.83467155 -0.14820752 -0.1012919 -0.04410457 [3,] -0.5397403 0.92664487 -0.30390539 0.3105849 -0.69958321 [4,] 1.0112805 1.13063148 -1.59802451 0.7597861 -0.72821421 [5,] -1.1170756 -0.05128944 0.02755781 -0.8896866 0.12294861 [6,] 0.7043937 0.82557039 -1.38759266 0.5266536 0.67345991 [7,] 0.7522765 0.25513348 -1.00076227 0.1141770 1.70003769 [8,] 0.3371948 -1.48590028 -0.67115529 -0.8242699 1.32741665 #This takes out the rows with ALL zeros x[!apply(x,1,function(x)all(x)==0),] [,1][,2][,3] [,4][,5] [1,] 2.1632497 0.43219960 0.05329827 0.1484550 2.12996660 [2,] -1.2230673 0.83467155 -0.14820752 -0.1012919 -0.04410457 [3,] -0.5397403 0.92664487 -0.30390539 0.3105849 -0.69958321 [4,] 1.0112805 1.13063148 -1.59802451 0.7597861 -0.72821421 [5,] -1.1170756 -0.05128944 0.02755781 -0.8896866 0.12294861 [6,] 0.7043937 0.82557039 -1.38759266 0.5266536 0.67345991 [7,] 0.7522765 0.25513348 -1.00076227 0.1141770 1.70003769 [8,] 0.3371948 -1.48590028 -0.67115529 -0.8242699 1.32741665 Hope this helps! Sincerely, Erin Hodgess Associate Professor Department of Computer and Mathematical Sciences University of Houston - Downtown mailto: [EMAIL PROTECTED] From: Peter Wilkinson [EMAIL PROTECTED] Subject: [R] how to drop rows from a data.frame here is a snippet of data where I would like to drop all rows that have zeros across them, and keep the rest of the rows while maintaining the row names (1,2,3, ...10). The idea here is that a row of zeros is an indication that the row must be dropped. There will never be the case where there is a row(of n columns) with less than 5 zeros in this case(n zeros I am unsure how to manipulate the data frame to drop rows whiles keeping row names. Peter the data (imagine separated by tabs): SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 [4,] 0.0. 0. 0. 0. [5,] 0.0. 0. 0. 0. [6,] 0.0. 0. 0. 0. [7,] 0.0. 0. 0. 0. [8,] 257. 257. 257. 257. 257. [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 [10,] 0.0. 0. 0. 0. what I want it to look like: SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 [8,] 257. 257. 257. 257. 257. [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] how to drop rows from a data.frame
Thanks for everyone's help, there seems to be many ways of solving the problem that work well. Peter At 12:36 AM 7/1/2004, Gabor Grothendieck wrote: Assuming all the entries are non-negative and non-NA this will do it: DF[rowSums(DF) 0,] Peter Wilkinson pwilkinson at videotron.ca writes: : : here is a snippet of data where I would like to drop all rows that have : zeros across them, and keep the rest of the rows while maintaining the row : names (1,2,3, ...10). The idea here is that a row of zeros is an indication : that the row must be dropped. There will never be the case where there is a : row(of n columns) with less than 5 zeros in this case(n zeros : : I am unsure how to manipulate the data frame to drop rows whiles keeping : row names. : : Peter : : the data (imagine separated by tabs): : :SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 : [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 : [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 : [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 : [4,] 0.0. 0. 0. 0. : [5,] 0.0. 0. 0. 0. : [6,] 0.0. 0. 0. 0. : [7,] 0.0. 0. 0. 0. : [8,] 257. 257. 257. 257. 257. : [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 : [10,] 0.0. 0. 0. 0. : : what I want it to look like: : :SEKH0001 SEKH0002 SEKH0003 SEKH0004 SEKH0005 : [1,] 256.1139 256.1139 256.1139 256.1139 256.1139 : [2,] 283.0741 695.1000 614.5117 453.0342 500.1436 : [3,] 257.3578 305.0818 257.3578 257.3578 257.3578 : [8,] 257. 257. 257. 257. 257. : [9,] 305.7857 2450.0417 335.5428 305.7857 584.2485 __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] RGL on Mac OS X
Scanning various lists for R, I've noticed that a few people have raised the question of getting the rgl package to run in R on the Mac operating system. As far as I can tell (and I must admit to being a novice here), the problem has to do with the inclusion of the /usr/X11R6/lib in R's environment, masking one framework with another. More than one of the people commenting on the problem seemed to suggest that it should be fairly simple to fix or at least temporarily hack. However, it is not clear to me how to do it, given that I know very little about UNIX and even less about R. Could someone please give step-by-step instructions on what I need to do to get rgl working in OS X? Thanks a lot. Matt https://stat.ethz.ch/pipermail/r-sig-mac/2003-June/000868.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
