Re: [R] write.foreign, SPSS on Mac OS X
On Tue, 12 Jul 2005, EJ Nikelski wrote: I have jut installed the foreign package (v 0.8-8) on my OS X machine, and have a bit of a problem writing out a data frame in SPSS format. Specifically, the code file (the .sps format file) seems to write 3 unprintable hex values instead of double quotes. For example, in the following output ... VALUE LABELS / immDel 1 ###1### 2 ###2### 3 ###3### ... emacs tells me that the left-sided ### are the hex codes E2 80 9C, on the right we have E2 80 9D. I am supposing that I should be seeing double-quotes here? Interestingly, the data file, which also contains a quoted field, writes out the quotes without any problem. Does anyone have any ideas? An idea. Those are left and right double quotes in UTF-8 and since MacOS X is usually in a UTF-8 locale they should be printable. However, I suspect that SPSS is expecting ASCII double quotation marks. You haven't told us what you did, but I guess you used write.foreign(package=SPSS). That calls writeForeignSPSS which contains calls to dQuote(), and the latter are wrong if ASCII quotation marks are needed. A quick workaround is to use a non-UTF-8 locale: how you do that on ypur OS depends on how you run R so please ask advice on the R-sig-mac list. -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] fail in adding library in new version.
I've prepared a Windows batch file that gives you a fresh Windows commando prompt setup for R. You can download it from: http://www.maths.lth.se/help/R/RCMDprompt.bat It has instructions how and where to download necessary software such as 'hhc'. The script setup the PATH assuming default installation of everything so with some luck you can build R packages right away. If not, follow the instructions and modify some of the variables. /Henrik On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote: If you start up a fresh batch console and run hhc do you get the usage message? If not you still have a path problem. You only need hhc.exe so just copy that file into any directory on your path -- issue the command: path to find out which directories you can copy it into (and also post the output of the path command if you still have problem) -- with this approach you won't have to set your path to the HTML Help Workshop. On 7/12/05, Ivy_Li [EMAIL PROTECTED] wrote: Dear All, I have downloaded the htmlhelp.exe from InterNet. Install it into the path C:\Program Files\HTML Help Workshop\. I add this path into the Control Panel - System - Advanced - Environment Variables - Path - Variable. But it still exist error. -- Making package example adding build stamp to DESCRIPTION installing R files installing data files installing man source files installing indices not zipping data installing help Building/Updating help pages for package 'example' Formats: text html latex example chm d texthtmllatex example e texthtmllatex example f texthtmllatex example g texthtmllatex example hhc: not found cp: cannot stat `D:/PROGRA~1/R/rw2011/example/chm/example.chm': No such file or directory make[1]: *** [chm-example] Error 1 make: *** [pkg-example] Error 2 *** Installation of example failed *** Removing 'D:/PROGRA~1/R/rw2011/library/example' Restoring previous 'D:/PROGRA~1/R/rw2011/library/example' I don't know why it can not find the hhc file. Please tell me which step is wrong. Thank you for helping me! ^_^ -原始邮件- 发件人: Gabor Grothendieck [mailto:[EMAIL PROTECTED] 发送时间: 2005年7月13日 9:32 收件人: Ivy_Li 抄送: Duncan Murdoch; r-help@stat.math.ethz.ch 主题: Re: 答复: [R] fail in adding library in new version. hhc.exe is the Microsoft help compiler. You have to download it and put it somewhere in your path. On 7/12/05, Ivy_Li [EMAIL PROTECTED] wrote: Dear all, I really appreciate your help. I think I have a little advancement. ^_^ Now I use the package.skeleton() function to create a template. I type: f - function(x,y) x+y g - function(x,y) x-y d - data.frame(a=1, b=2) e - rnorm(1000) package.skeleton(list=c(f,g,d,e), name=example) in R. I know it will create a folder named example in the path of \R\rw2011\ I opened this folder, its format is similar as other library. Then I modify it DESCRIPTION file: Package: example Version: 1.0-1 Date: 2005-07-09 Title: My first function Author: Ivy [EMAIL PROTECTED] Maintainer: Ivy [EMAIL PROTECTED] Description: simple sum and subtract License: GPL version 2 or later Depends: R (= 1.9), stats, graphics, utils I don't whether I should modify other README file. When I enter the Dos environment, at first, into the D:\, I type the following code: cd Program Files\R\rw2011\ bin\R CMD install /example Well, there appeared error: -- Making package example adding build stamp to DESCRIPTION installing R files installing data files installing man source files installing indices not zipping data installing help Building/Updating help pages for package 'example' Formats: text html latex example chm d texthtmllatex example chm e texthtmllatex example chm f texthtmllatex example chm missing link(s): ~~fun~~ g texthtmllatex example chm missing link(s): ~~fun~~ hhc: not found cp: cannot stat
Re: [R] How to increase memory for R on Soliars 10 with 16GB and 64bit R
On Tue, 12 Jul 2005, Dongseok Choi wrote: My machine is SUN Java Workstation 2100 with 2 AMD Opteron CPUs and 16GB RAM. R is compiled as 64bit by using SUN compilers. I trying to fit quantile smoothing on my data and I got an message as below. fit1-rqss(z1~qss(cbind(x,y),lambda=la1),tau=t1) Error in as.matrix.csr(diag(n)) : cannot allocate memory block of size 2496135168 The lengths of vector x and y are both 17664. I tried and found that the same command ran with x[1:16008] and y[1:16008]. So, it looks to me a memory related problem, but I'm not sure how I can allocate memory block. I read the command line option but not sure what do to with it. Could you help me on this? It is trying to allocate a single memory block of size over 2^31-1 bytes. R internally uses ints for sizes of vectors and that is a limit (see help(Memory-limits) ). However, it is intended that on 64-bit systems that there is a limit here of 8*(2^31-1) but there was a typo. Please change line 1534 of src/main/memory.c to #if SIZEOF_LONG 4 and re-compile. -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] exact values for p-values
This is obtained from F =39540 with df1 = 1, df2 = 7025. Suppose am interested in exact value such as If it were really necessary, you would have to move to multiple precision. The gmp R package doesn't seem to yet cover this, but FMLIB (TOMS814, DM Smith) is a multiple precision f90 library that does include the incomplete beta -- it allows one to say for F(1,7025)=39540, P=6.31E-2886 (evaluated using 200 sign. digit arithmetic). Results from R's pf() agree quite closely with the FMLIB results for less extreme values eg print(pf(1500,1,7025,lower=FALSE), digits=20) [1] 1.3702710894887480597e-297 cf 1.37027108948832580215549799419452388134616261215463681945E-297 | David Duffy (MBBS PhD) ,-_|\ | email: [EMAIL PROTECTED] ph: INT+61+7+3362-0217 fax: -0101 / * | Epidemiology Unit, Queensland Institute of Medical Research \_,-._/ | 300 Herston Rd, Brisbane, Queensland 4029, Australia GPG 4D0B994A v __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Boxcox transformation / homogeneity of variances
Dear r-helpers, Prior to analysis of variance, I ran the Boxcox function (MASS library) to find the best power transformation of my data. However, reading the Boxcox help file, I cannot figure out if this function (through its associated log-likelihood function) corrects for * normality only * or if it also induces * homogeneity of variances *. I found in Biometry (Sokal and Rohlf, p. 419) that the box-cox transformation can be extended to induce homogenity of variances in conjunction with Bartlett's test of homogeneity of variances. Does the Boxcox function implemented in R refer to this extension ? Thanks a lot, - - - - - - - - - - - - - - - - - - - - - - - Arnaud DOWKIW INRA Forest Research Avenue de la Pomme de Pin BP 20619 ARDON 45166 OLIVET CEDEX FRANCE Tel. + 33 2 38 41 78 00 Fax. + 33 2 38 41 48 09 - - - - - - - - - - - - - - - - - - - - - - - __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab?
On 13-Jul-05 klebyn wrote: Hello, How to use the function plot to produce graphs as Matlab? example in Matlab: a = [1,2,5,3,6,8,1,7]; b = [1,7,2,9,2,3,4,5]; plot(a,'b') hold plot(b,'r') How to make the same in R-package ? I am trying something thus: a - c(1,2,5,3,6,8,1,7) c(1,7,2,9,2,3,4,5) - b a;b plot(a,t=l,col=blue) plot(b,t=l,col=red) Although this is an over-worked query -- for which an answer, given that t=l has been specified, is to use plot(a,t=l,col=blue,ylim=c(0,10)) lines(b,t=l,col=red) there is a more interesting issue associated with it (given that Klebyn has come to it from a Matlab perspective). It's a long time since I used real Matlab, but I'll illustrate with octave which, in this respect, should be identical to Matlab. Octave: octave:1 x = 0.1*(0:20); octave:2 plot(x,sin(x)) produces a graph of sin(x) with the y-axis scaled from 0 to 1.0 Next: octave:3 hold on octave:4 plot(x,1.5*cos(x)) superimposes a graph of 1.5*cos(x) with the y-axis automatically re-scaled from -1 to 1.5. This would not have happened in R with x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) where the 0 to 1.0 scaling of the first plot would be kept for the second, in which therefore part of the additional graph of 1.5*cos(x) would be outside the box. No doubt like many others, I've been caught on the wrong foot by this more than a few times. The solution, of course (as illustrated in the reply to Klebyn above) is to anticipate what scaling you will need for all the graphs you intend to put on the same plot, and set up the scalings at the time of the first one using the options xlim and ylim, e.g.: x = 0.1*(0:20); plot(x,sin(x),ylim=c(-1,1.5)) lines(x,1.5*cos(x)) This is not always feasible, and indeed should not be expected to be feasible since part of the reason for using software like R in the first place is to compute what you do not know! Indeed, R will not allow you to use xlim or ylim once the first plot has been drawn. So in such cases I end up making a note (either on paper or, when I do really serious planning, in auxiliary variables) of the min's and max's for each graph, and then re-run the plotting commands with appropriate xlim and ylim scaling set up in the first plot so as to include all the subsequent graphs in entirety. (Even this strategy can be defeated if the succesive graphs represent simulations of long-tailed distributions. Unless of course I'm sufficiently alert to set the RNG seed first as well ... ) I'm not sufficiently acquainted with the internals of plot and friends to anticipate the answer to this question; but, anyway, the question is: Is it feasible to include, as a parameter to plot, lines and points, rescale=FALSE where this default value would maintain the existing behaviour of these functions, while setting rescale=TRUE would allow each succeeding plot, adding graphs using points or lines, to be rescaled (as in Matlab/Octave) so as to include the entirety of each successive graph? Best wishes to all, Ted. E-Mail: (Ted Harding) [EMAIL PROTECTED] Fax-to-email: +44 (0)870 094 0861 Date: 13-Jul-05 Time: 09:12:34 -- XFMail -- __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab?
Hi Ted makes a good point... matlab can dynamically rescale a plot in response to plot(...,add=TRUE) statements. For some reason which I do not understand, the rescaling issue is only a problem for me when working in matlab mode. It's not an issue when working in R mode Ted pointed out that the following does not behave as intended: x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) and presented an alternative method in which ylim was set by hand. I would suggest: x - 0.1*(0:20) y1 - sin(x) y2 - 1.5*cos(x) plot(c(x,x),c(y1,y2),type=n) lines(x,y1) lines(x,y2) because this way, the axes are set by the plot() statement, but nothing is plotted. best wishes rksh On 13 Jul 2005, at 09:12, (Ted Harding) wrote: Although this is an over-worked query -- for which an answer, given that t=l has been specified, is to use plot(a,t=l,col=blue,ylim=c(0,10)) lines(b,t=l,col=red) there is a more interesting issue associated with it (given that Klebyn has come to it from a Matlab perspective). It's a long time since I used real Matlab, but I'll illustrate with octave which, in this respect, should be identical to Matlab. Octave: octave:1 x = 0.1*(0:20); octave:2 plot(x,sin(x)) produces a graph of sin(x) with the y-axis scaled from 0 to 1.0 Next: octave:3 hold on octave:4 plot(x,1.5*cos(x)) superimposes a graph of 1.5*cos(x) with the y-axis automatically re-scaled from -1 to 1.5. This would not have happened in R with x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) where the 0 to 1.0 scaling of the first plot would be kept for the second, in which therefore part of the additional graph of 1.5*cos(x) would be outside the box. No doubt like many others, I've been caught on the wrong foot by this more than a few times. The solution, of course (as illustrated in the reply to Klebyn above) is to anticipate what scaling you will need for all the graphs you intend to put on the same plot, and set up the scalings at the time of the first one using the options xlim and ylim, e.g.: x = 0.1*(0:20); plot(x,sin(x),ylim=c(-1,1.5)) lines(x,1.5*cos(x)) This is not always feasible, and indeed should not be expected to be feasible since part of the reason for using software like R in the first place is to compute what you do not know! Indeed, R will not allow you to use xlim or ylim once the first plot has been drawn. So in such cases I end up making a note (either on paper or, when I do really serious planning, in auxiliary variables) of the min's and max's for each graph, and then re-run the plotting commands with appropriate xlim and ylim scaling set up in the first plot so as to include all the subsequent graphs in entirety. (Even this strategy can be defeated if the succesive graphs represent simulations of long-tailed distributions. Unless of course I'm sufficiently alert to set the RNG seed first as well ... ) I'm not sufficiently acquainted with the internals of plot and friends to anticipate the answer to this question; but, anyway, the question is: Is it feasible to include, as a parameter to plot, lines and points, rescale=FALSE where this default value would maintain the existing behaviour of these functions, while setting rescale=TRUE would allow each succeeding plot, adding graphs using points or lines, to be rescaled (as in Matlab/Octave) so as to include the entirety of each successive graph? Best wishes to all, Ted. E-Mail: (Ted Harding) [EMAIL PROTECTED] Fax-to-email: +44 (0)870 094 0861 Date: 13-Jul-05 Time: 09:12:34 -- XFMail -- __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting- guide.html -- Robin Hankin Uncertainty Analyst National Oceanography Centre, Southampton European Way, Southampton SO14 3ZH, UK tel 023-8059-7743 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Boxcox transformation / homogeneity of variances
Please consult the reference on the help page of that function: it _is_ support software for a book. It implements the Box-Cox procedure (as it says). The original Box-Cox paper has three aims, two of which you have mentioned (but perhaps the most inportant one is the one you have not mentioned, additivity). It is probably worth stressing that the Box-Cox procedure is about finding the best transformation within a specific family for fitting a particular _model_ to a set of data, not for the data per se. There is a long history of people using an inappropriate model and finding an uninterpretable transformation. On Wed, 13 Jul 2005, Arnaud Dowkiw wrote: Prior to analysis of variance, I ran the Boxcox function (MASS library) to find the best power transformation of my data. However, reading the Boxcox help file, I cannot figure out if this function (through its associated log-likelihood function) corrects for * normality only * or if it also induces * homogeneity of variances *. I found in Biometry (Sokal and Rohlf, p. 419) that the box-cox transformation can be extended to induce homogenity of variances in conjunction with Bartlett's test of homogeneity of variances. Does the Boxcox function implemented in R refer to this extension ? -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab
For most purposes it is easiest to use matplot() to plot superimposed plots like this. E.g. x - 0.1*(0:20) matplot(x, cbind(sin(x), cos(x)), pl, pch=1) On Wed, 13 Jul 2005, Robin Hankin wrote: Hi Ted makes a good point... matlab can dynamically rescale a plot in response to plot(...,add=TRUE) statements. For some reason which I do not understand, the rescaling issue is only a problem for me when working in matlab mode. It's not an issue when working in R mode Ted pointed out that the following does not behave as intended: x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) and presented an alternative method in which ylim was set by hand. I would suggest: x - 0.1*(0:20) y1 - sin(x) y2 - 1.5*cos(x) plot(c(x,x),c(y1,y2),type=n) lines(x,y1) lines(x,y2) because this way, the axes are set by the plot() statement, but nothing is plotted. best wishes rksh On 13 Jul 2005, at 09:12, (Ted Harding) wrote: Although this is an over-worked query -- for which an answer, given that t=l has been specified, is to use plot(a,t=l,col=blue,ylim=c(0,10)) lines(b,t=l,col=red) there is a more interesting issue associated with it (given that Klebyn has come to it from a Matlab perspective). It's a long time since I used real Matlab, but I'll illustrate with octave which, in this respect, should be identical to Matlab. Octave: octave:1 x = 0.1*(0:20); octave:2 plot(x,sin(x)) produces a graph of sin(x) with the y-axis scaled from 0 to 1.0 Next: octave:3 hold on octave:4 plot(x,1.5*cos(x)) superimposes a graph of 1.5*cos(x) with the y-axis automatically re-scaled from -1 to 1.5. This would not have happened in R with x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) where the 0 to 1.0 scaling of the first plot would be kept for the second, in which therefore part of the additional graph of 1.5*cos(x) would be outside the box. No doubt like many others, I've been caught on the wrong foot by this more than a few times. The solution, of course (as illustrated in the reply to Klebyn above) is to anticipate what scaling you will need for all the graphs you intend to put on the same plot, and set up the scalings at the time of the first one using the options xlim and ylim, e.g.: x = 0.1*(0:20); plot(x,sin(x),ylim=c(-1,1.5)) lines(x,1.5*cos(x)) This is not always feasible, and indeed should not be expected to be feasible since part of the reason for using software like R in the first place is to compute what you do not know! Indeed, R will not allow you to use xlim or ylim once the first plot has been drawn. So in such cases I end up making a note (either on paper or, when I do really serious planning, in auxiliary variables) of the min's and max's for each graph, and then re-run the plotting commands with appropriate xlim and ylim scaling set up in the first plot so as to include all the subsequent graphs in entirety. (Even this strategy can be defeated if the succesive graphs represent simulations of long-tailed distributions. Unless of course I'm sufficiently alert to set the RNG seed first as well ... ) I'm not sufficiently acquainted with the internals of plot and friends to anticipate the answer to this question; but, anyway, the question is: Is it feasible to include, as a parameter to plot, lines and points, rescale=FALSE where this default value would maintain the existing behaviour of these functions, while setting rescale=TRUE would allow each succeeding plot, adding graphs using points or lines, to be rescaled (as in Matlab/Octave) so as to include the entirety of each successive graph? Best wishes to all, Ted. E-Mail: (Ted Harding) [EMAIL PROTECTED] Fax-to-email: +44 (0)870 094 0861 Date: 13-Jul-05 Time: 09:12:34 -- XFMail -- __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting- guide.html -- Robin Hankin Uncertainty Analyst National Oceanography Centre, Southampton European Way, Southampton SO14 3ZH, UK tel 023-8059-7743 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- 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 __ R-help@stat.math.ethz.ch mailing list
[R] exact values for p-values
Hi David, Since I am looking at very extreme values, it appears I will need FMLIB. Is it an R lib? if so which version? How/where can I download it? Regards. - Original Message - From: David Duffy [EMAIL PROTECTED] Date: Wednesday, July 13, 2005 9:46 am Subject: [R] exact values for p-values This is obtained from F =39540 with df1 = 1, df2 = 7025. Suppose am interested in exact value such as If it were really necessary, you would have to move to multiple precision. The gmp R package doesn't seem to yet cover this, but FMLIB(TOMS814, DM Smith) is a multiple precision f90 library that does include the incomplete beta -- it allows one to say for F(1,7025)=39540,P=6.31E-2886 (evaluated using 200 sign. digit arithmetic). Results from R's pf() agree quite closely with the FMLIB results for less extreme values eg print(pf(1500,1,7025,lower=FALSE), digits=20) [1] 1.3702710894887480597e-297 cf 1.37027108948832580215549799419452388134616261215463681945E-297 | David Duffy (MBBS PhD) ,- _|\ | email: [EMAIL PROTECTED] ph: INT+61+7+3362-0217 fax: -0101 / * | Epidemiology Unit, Queensland Institute of Medical Research \_,-._/ | 300 Herston Rd, Brisbane, Queensland 4029, Australia GPG 4D0B994A v __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting- guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Kronecker matrix product
Hi I want to write a little function that takes a matrix X of size m-by-n, and a list L of length m, whose elements are matrices all of which have the same number of columns but possibly a different number of rows. I then want to get a sort of dumbed-down kronecker product in which X[i,j] is replaced by X[i,j]*L[[j]] where L[[j]] is the j-th of the m matrices. For example, if X = matrix(c(1,5,0,2),2,2) and L[[1]] = matrix(1:4,2,2) L[[2]] = matrix(c(1,1,1,1,1,10),ncol=2) I want [,1] [,2] [,3] [,4] [1,]1300 [2,]2400 [3,]5522 [4,]5522 [5,]5 502 20 see how, for example, out[3:5,1:2] == 5*L[[2]], the 5 coming from X [2,1]. [ I can bind L together into a single matrix with do.call(rbind,L) and calculate the number of rows with sapply(L,nrow) but I don't see how this can help. ] -- Robin Hankin Uncertainty Analyst National Oceanography Centre, Southampton European Way, Southampton SO14 3ZH, UK tel 023-8059-7743 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] delete a row from a matrix
Hi, I would like to know if it's possible to delete a rox from a matrix? fig [,1] [,2] [,3] [,4] [1,]01 0.0 0.2 [2,]01 0.2 0.8 [3,]01 0.8 1.0 [4,]01 NA NA [5,]01 NA NA I would like to delete the 2 rows with NA! Thanks Sabine - [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Kronecker matrix product
RH == Robin Hankin [EMAIL PROTECTED] writes: RH I want to write a little function that takes a matrix X of RH size m-by-n, and a list L of length m, whose elements are RH matrices all of which have the same number of columns but RH possibly a different number of rows. RH I then want to get a sort of dumbed-down kronecker product in which RH X[i,j] is replaced by X[i,j]*L[[j]] RH where L[[j]] is the j-th of the m matrices. For example, if RH X = matrix(c(1,5,0,2),2,2) RH and RH L[[1]] = matrix(1:4,2,2) RH L[[2]] = matrix(c(1,1,1,1,1,10),ncol=2) RH I want RH [,1] [,2] [,3] [,4] RH [1,]1300 RH [2,]2400 RH [3,]5522 RH [4,]5522 RH [5,]5 502 20 tmp - sapply(1:length(L), function(j, mat, list) kronecker(X[j,,drop=FALSE], L[[j]]), mat=X, list=L) do.call(rbind, tmp) [,1] [,2] [,3] [,4] [1,]1300 [2,]2400 [3,]5522 [4,]5522 [5,]5 502 20 HTH. Cheers, Berwin == Full address Berwin A Turlach Tel.: +61 (8) 6488 3338 (secr) School of Mathematics and Statistics+61 (8) 6488 3383 (self) The University of Western Australia FAX : +61 (8) 6488 1028 35 Stirling Highway Crawley WA 6009e-mail: [EMAIL PROTECTED] Australiahttp://www.maths.uwa.edu.au/~berwin __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] delete a row from a matrix
Navarre Sabine [EMAIL PROTECTED] writes: Hi, I would like to know if it's possible to delete a rox from a matrix? fig [,1] [,2] [,3] [,4] [1,]01 0.0 0.2 [2,]01 0.2 0.8 [3,]01 0.8 1.0 [4,]01 NA NA [5,]01 NA NA I would like to delete the 2 rows with NA! fig - fig[-c(4,5),] or, more generally fig - fig[complete.cases(fig),] or, even more generally fig - fig[!apply(is.na(fig), 1, any),] -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] nlme, MASS and geoRglm for spatial autocorrelation?
Hi. I'm trying to perform what should be a reasonably basic analysis of some spatial presence/absence data but am somewhat overwhelmed by the options available and could do with a helpful pointer. My researches so far indicate that if my data were normal, I would simply use gls() (in nlme) and one of the various corSpatial functions (eg. corSpher() to be analagous to similar analysis in SAS) with form = ~ x+y (and a nugget if appropriate). However, my data are binomial, so I need a different approach. Using various packages I could define a mixed model (eg using glmmPQL() in MASS) with similar correlation structure, but I seem to need to define a random effect to use glmmPQL(), and I don't have any. Could this requirement be switched off and still use the mixed model approach? Alternatively, it may be possible to define the variance appropriately in gls and use logits directly, but I'm not quite sure how and suspect there's a more straight-forward alternative. Looking at geoRglm suggests there may be solutions here, but it seems like it might be overkill for what is, at first appearance at least, not such a difficult problem. Maybe I'm just being statistically naive, but I think I'm looking for a function somewhere between gls() and glmmPQL() and would be grateful for any pointers. Thanks very much, Colin Beale ... [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Kronecker matrix product
BT == Berwin A Turlach [EMAIL PROTECTED] writes: tmp - sapply(1:length(L), function(j, mat, list) kronecker(X[j,,drop=FALSE], L[[j]]), mat=X, list=L) Uups, should proof read more carefully before hitting the send button. This should be, of course: tmp - sapply(1:length(L), function(j, mat, list) kronecker(mat[j,,drop=FALSE], list[[j]]), mat=X, list=L) Cheers, Berwin == Full address Berwin A Turlach Tel.: +61 (8) 6488 3338 (secr) School of Mathematics and Statistics+61 (8) 6488 3383 (self) The University of Western Australia FAX : +61 (8) 6488 1028 35 Stirling Highway Crawley WA 6009e-mail: [EMAIL PROTECTED] Australiahttp://www.maths.uwa.edu.au/~berwin __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] GARCH model using fSeries
I am trying to fit a GARCH model in fSeries but up to now without success. I downloaded the the OxConsole Software together with the [EMAIL PROTECTED] 4.0 package and saved the oxl.exe and GarchOxModelling.ox files correctly in the files C:\\Ox\\bin\\oxl.exe and C:\\Ox\\lib\\GarchOxModelling.ox. My argument for R is the following with mintel the time series data garchOxFit(formula.mean=~arma(0,0),formula.var=~garch(1,1),series=mintel ,cond.dist=c(gaussian),include.mean=TRUE) I receive the following error message and need help please. Error in cat(list(...), file, sep, fill, labels, append) : argument 1 not yet handled by cat Thanks Helena [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Name for factor's levels with contr.sum
Good morning, I used in R contr.sum for the contrast in a lme model: options(contrasts=c(contr.sum,contr.poly)) Septo5.lme-lme(Septo~Variete+DateSemi,Data4.Iso,random=~1|LieuDit) intervals(Septo5.lme)$fixed lower est. upper (Intercept) 17.0644033 23.106110 29.147816 Variete1 9.5819873 17.335324 25.088661 Variete2 -3.3794907 6.816101 17.011692 Variete3 -0.5636915 8.452890 17.469472 Variete4 -22.8923812 -10.914912 1.062558 Variete5 -10.7152821 -1.865884 6.983515 Variete6 0.2743390 9.492175 18.710012 Variete7 -23.7943250 -15.070737 -6.347148 Variete8 -21.7310554 -12.380475 -3.029895 Variete9 -27.9782575 -17.480555 -6.982852 DateSemi1 -5.7903419 -1.547875 2.694592 DateSemi2 3.6571596 8.428417 13.199675 attr(,label) [1] Fixed effects: How is it possible to obtain a return with the name of my factor's levels as with contr.treatment ? Thanks for you help. -- Ghislain Vieilledent 30, rue Bernard Ortet 31 500 TOULOUSE 06 24 62 65 07 [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Please help me.....
Fernando Espíndola wrote: Hi user R, I am try to calculate the spectrum function in two time series. But when plot a single serie, the labels in axes x is in the range 0.1 to 0.6 (frequency), but when calculate de spectrum with ts.union function, the labels x is in the range 1 to 6. I not understand why change the labels, and not know that is ralationship. Samebody can hel me in this analysis. Not so for me. As the posting guide asks you to do: Can you specify a reproducible example, please. Uwe Ligges Thank for all fdo Fernando Espindola R. Division Investigacion Pesquera Instituto de Fomento Pesquero Blanco 839 Valparaiso - CHILE fono: 32 - 322442 [EMAIL PROTECTED] [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] delete a row from a matrix
Hi, May I ask a related question, how to insert a row/column to a matrix? Thanks Xiaohua On 13 Jul 2005 11:38:30 +0200, Peter Dalgaard [EMAIL PROTECTED] wrote: Navarre Sabine [EMAIL PROTECTED] writes: Hi, I would like to know if it's possible to delete a rox from a matrix? fig [,1] [,2] [,3] [,4] [1,] 0 1 0.0 0.2 [2,] 0 1 0.2 0.8 [3,] 0 1 0.8 1.0 [4,] 0 1 NA NA [5,] 0 1 NA NA I would like to delete the 2 rows with NA! fig - fig[-c(4,5),] or, more generally fig - fig[complete.cases(fig),] or, even more generally fig - fig[!apply(is.na(fig), 1, any),] -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab
On 13-Jul-05 Prof Brian Ripley wrote: For most purposes it is easiest to use matplot() to plot superimposed plots like this. E.g. x - 0.1*(0:20) matplot(x, cbind(sin(x), cos(x)), pl, pch=1) This, and Robin's suggestion, are good practical solutions especially when only a few graphs (2 or 3 or ... ) are involved. However, their undelying principle is to accumulate auxiliary variables encapsulating the graphs which will eventually be plotted. However, once in a while I like to make a really messy graph of superimposed sample paths of a simulated stochastic process, perhaps with several dozen replications and many points (even 5000) along each sample path. An example where this has a real practical point is diffusion from the chimney stack of, say, an incinerator. The resulting plot can give a good picture of the average plume, allowing the viewer to form an impression of the variation in concentration along and on the fringes of the plume. This is definitely a case where dynamic rescaling could save hassle! Brian Ripley's suggestion involves first building a matrix whose columns are the replications and rows the time-points, and Robin Hankin's could be easily adapted to do the same, though I think would involve a loop over columns and some very long vectors. How much easier it would be with dynamic scaling! Best wishes, Ted. On Wed, 13 Jul 2005, Robin Hankin wrote: Hi Ted makes a good point... matlab can dynamically rescale a plot in response to plot(...,add=TRUE) statements. For some reason which I do not understand, the rescaling issue is only a problem for me when working in matlab mode. It's not an issue when working in R mode Ted pointed out that the following does not behave as intended: x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) and presented an alternative method in which ylim was set by hand. I would suggest: x - 0.1*(0:20) y1 - sin(x) y2 - 1.5*cos(x) plot(c(x,x),c(y1,y2),type=n) lines(x,y1) lines(x,y2) because this way, the axes are set by the plot() statement, but nothing is plotted. best wishes rksh On 13 Jul 2005, at 09:12, (Ted Harding) wrote: Although this is an over-worked query -- for which an answer, given that t=l has been specified, is to use plot(a,t=l,col=blue,ylim=c(0,10)) lines(b,t=l,col=red) there is a more interesting issue associated with it (given that Klebyn has come to it from a Matlab perspective). It's a long time since I used real Matlab, but I'll illustrate with octave which, in this respect, should be identical to Matlab. Octave: octave:1 x = 0.1*(0:20); octave:2 plot(x,sin(x)) produces a graph of sin(x) with the y-axis scaled from 0 to 1.0 Next: octave:3 hold on octave:4 plot(x,1.5*cos(x)) superimposes a graph of 1.5*cos(x) with the y-axis automatically re-scaled from -1 to 1.5. This would not have happened in R with x = 0.1*(0:20); plot(x,sin(x)) lines(x,1.5*cos(x)) where the 0 to 1.0 scaling of the first plot would be kept for the second, in which therefore part of the additional graph of 1.5*cos(x) would be outside the box. No doubt like many others, I've been caught on the wrong foot by this more than a few times. The solution, of course (as illustrated in the reply to Klebyn above) is to anticipate what scaling you will need for all the graphs you intend to put on the same plot, and set up the scalings at the time of the first one using the options xlim and ylim, e.g.: x = 0.1*(0:20); plot(x,sin(x),ylim=c(-1,1.5)) lines(x,1.5*cos(x)) This is not always feasible, and indeed should not be expected to be feasible since part of the reason for using software like R in the first place is to compute what you do not know! Indeed, R will not allow you to use xlim or ylim once the first plot has been drawn. So in such cases I end up making a note (either on paper or, when I do really serious planning, in auxiliary variables) of the min's and max's for each graph, and then re-run the plotting commands with appropriate xlim and ylim scaling set up in the first plot so as to include all the subsequent graphs in entirety. (Even this strategy can be defeated if the succesive graphs represent simulations of long-tailed distributions. Unless of course I'm sufficiently alert to set the RNG seed first as well ... ) I'm not sufficiently acquainted with the internals of plot and friends to anticipate the answer to this question; but, anyway, the question is: Is it feasible to include, as a parameter to plot, lines and points, rescale=FALSE where this default value would maintain the existing behaviour of these functions, while setting rescale=TRUE would allow each succeeding plot, adding graphs using points or lines, to be rescaled (as in Matlab/Octave) so as to include the entirety of each successive graph? Best wishes to all, Ted.
[R] fitting Weibull distribution on observed percentiles
Hi , R Users I'm trying to fit a Weibull ditribution on observed percentiles using nls but it doesn't work. Here is the code I use: is there something wrong ? # p corresponds to percentiles # and q to the observed values # the datas are from the livebirth in france in 1998 distribution ined1998 - data.frame( p = c(0.01638,0.49629,0.99284) , q = c( 18,27,41)) a0- 3 b0- ined1998$q[2]/gamma(1+1/a0) dist_w1998 - nls(ined1998$q ~ qweibull(ined1998$p , a0 , b0) , start = c(a0,b0) , data=ined1998) I look forward your reply C.M URC NECKER [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: 答复: [R] fail in adding library in new version.
Ivy_Li wrote: Dear all, I really appreciate your help. I think I have a little advancement. ^_^ Now I use the package.skeleton() function to create a template. I type: f - function(x,y) x+y g - function(x,y) x-y d - data.frame(a=1, b=2) e - rnorm(1000) package.skeleton(list=c(f,g,d,e), name=example) in R. I know it will create a folder named example in the path of \R\rw2011\ I opened this folder, its format is similar as other library. Then I modify it DESCRIPTION file: Package: example Version: 1.0-1 Date: 2005-07-09 Title: My first function Author: Ivy [EMAIL PROTECTED] Maintainer: Ivy [EMAIL PROTECTED] Description: simple sum and subtract License: GPL version 2 or later Depends: R (= 1.9), stats, graphics, utils I don't whether I should modify other README file. When I enter the Dos environment, at first, into the D:\, I type the following code: cd Program Files\R\rw2011\ bin\R CMD install /example Well, there appeared error: -- Making package example adding build stamp to DESCRIPTION installing R files installing data files installing man source files installing indices not zipping data installing help Building/Updating help pages for package 'example' Formats: text html latex example chm d texthtmllatex example chm e texthtmllatex example chm f texthtmllatex example chm missing link(s): ~~fun~~ g texthtmllatex example chm missing link(s): ~~fun~~ hhc: not found cp: cannot stat `D:/PROGRA~1/R/rw2011/example/chm/example.chm': No such file or directory make[1]: *** [chm-example] Error 1 make: *** [pkg-example] Error 2 *** Installation of example failed *** Removing 'D:/PROGRA~1/R/rw2011/library/example' That's it. I have to consult every R expert. Please help to solve this issue. Thank you very much! See the appendix The Windows Toolset in the R Installation and Administration manual. You need to install those tools. If you've done that, but decided not to use the Help Compiler (hhc), then you need to modify the MkRules file in RHOME/src/gnuwin32 to tell it not to try to build that kind of help. Duncan Murdoch __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nlme, MASS and geoRglm for spatial autocorrelation?
You seem to want to model spatially correlated bernoulli variables. That's a difficult task, especially as these are bernoulli and not binomial(n1). With a much fuller description of the problem we may be able to help, but I at least have no idea of the aims of the analysis. glmmPQL is designed for independent observations conditional on the random effects. On Wed, 13 Jul 2005, Beale, Colin wrote: Hi. I'm trying to perform what should be a reasonably basic analysis of some spatial presence/absence data but am somewhat overwhelmed by the options available and could do with a helpful pointer. My researches so far indicate that if my data were normal, I would simply use gls() (in nlme) and one of the various corSpatial functions (eg. corSpher() to be analagous to similar analysis in SAS) with form = ~ x+y (and a nugget if appropriate). However, my data are binomial, so I need a different approach. Using various packages I could define a mixed model (eg using glmmPQL() in MASS) with similar correlation structure, but I seem to need to define a random effect to use glmmPQL(), and I don't have any. Could this requirement be switched off and still use the mixed model approach? Alternatively, it may be possible to define the variance appropriately in gls and use logits directly, but I'm not quite sure how and suspect there's a more straight-forward alternative. Looking at geoRglm suggests there may be solutions here, but it seems like it might be overkill for what is, at first appearance at least, not such a difficult problem. Maybe I'm just being statistically naive, but I think I'm looking for a function somewhere between gls() and glmmPQL() and would be grateful for any pointers. Thanks very much, Colin Beale ... [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] adding a factor column based on levels of another factor
Hello Thanks for the replies. Merge was what I needed! But Christoph, I will keep your email. What you described is something else I have been wondering how to do in R... Thanks again Karen __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] delete a row from a matrix
If you want to append to the first/last column or row, then use cbind or rbind. It is a little tricky if you want to insert a row in the middle somewhere. See insertRow in micEcon package. Regards, Adai On Wed, 2005-07-13 at 12:08 +0200, ecoinfo wrote: Hi, May I ask a related question, how to insert a row/column to a matrix? Thanks Xiaohua On 13 Jul 2005 11:38:30 +0200, Peter Dalgaard [EMAIL PROTECTED] wrote: Navarre Sabine [EMAIL PROTECTED] writes: Hi, I would like to know if it's possible to delete a rox from a matrix? fig [,1] [,2] [,3] [,4] [1,] 0 1 0.0 0.2 [2,] 0 1 0.2 0.8 [3,] 0 1 0.8 1.0 [4,] 0 1 NA NA [5,] 0 1 NA NA I would like to delete the 2 rows with NA! fig - fig[-c(4,5),] or, more generally fig - fig[complete.cases(fig),] or, even more generally fig - fig[!apply(is.na(fig), 1, any),] -- O__ Peter Dalgaard ster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab
On 13 Jul 2005, at 11:01, (Ted Harding) wrote: On 13-Jul-05 Prof Brian Ripley wrote: For most purposes it is easiest to use matplot() to plot superimposed plots like this. E.g. x - 0.1*(0:20) matplot(x, cbind(sin(x), cos(x)), pl, pch=1) This, and Robin's suggestion, are good practical solutions especially when only a few graphs (2 or 3 or ... ) are involved. However, their undelying principle is to accumulate auxiliary variables encapsulating the graphs which will eventually be plotted. Ted makes a good point here. I would find this quite useful, for EDA (exploratory data analysis) work, where one often needs to add new lines to a plot, one at a time, in an ad hoc manner, just to see what happens. Would adding such functionality (perhaps via a new Boolean argument to plot(), rescaling, defaulting to FALSE, that enabled dynamic rescaling when plot(...,add=TRUE) is executed) require quite a lot of low-level work? best wishes Robin -- Robin Hankin Uncertainty Analyst National Oceanography Centre, Southampton European Way, Southampton SO14 3ZH, UK tel 023-8059-7743 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Memory question
Hi R users and developers: I want to know how can I save memory in R for example: - saving on disk a matrix. - using again the matrix (changing their values) - saving again the matrix on disk in a different file. The idea is that I have a process that generate several matrices, but if I keep them all in memory it will overflow. How can I save them in different files, so I use the same amount of memory for each processed matrix? Thank you for your help. -- Kenneth Roy Cabrera Torres Universidad Nacional de Colombia Sede Medellin Tel 430 9351 Cel 315 504 9339 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nlme, MASS and geoRglm for spatial autocorrelation?
My data are indeed bernoulli and not binomial, as I indicated. The dataset consists of points (grid refs) that are either locations of events (animals) or random points (with no animal present). For each point I have a suite of environmental covariates describing the habitat at this point. I was anticipating some sort of function that could run: function(present ~ env1 + env2 + env3 + x + y, correlation = corSpher(form=~x+y), family = binomial) where env1 to env3 are the habitat covariates, x y the grid refs. If my data were normal, I undertand I would use gls() with exactly this, but drop the family requirement. As my data are bernoulli this is clearly not possible, but I was hoping the analysis may be analagous? The eventual aim is to firstly understand which environmental covariates are important in determining presence and then to use habitat maps to identify the areas expected to be most important. Colin -Original Message- From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] Sent: 13 July 2005 11:30 To: Beale, Colin Cc: r-help@stat.math.ethz.ch Subject: Re: [R] nlme, MASS and geoRglm for spatial autocorrelation? You seem to want to model spatially correlated bernoulli variables. That's a difficult task, especially as these are bernoulli and not binomial(n1). With a much fuller description of the problem we may be able to help, but I at least have no idea of the aims of the analysis. glmmPQL is designed for independent observations conditional on the random effects. On Wed, 13 Jul 2005, Beale, Colin wrote: Hi. I'm trying to perform what should be a reasonably basic analysis of some spatial presence/absence data but am somewhat overwhelmed by the options available and could do with a helpful pointer. My researches so far indicate that if my data were normal, I would simply use gls() (in nlme) and one of the various corSpatial functions (eg. corSpher() to be analagous to similar analysis in SAS) with form = ~ x+y (and a nugget if appropriate). However, my data are binomial, so I need a different approach. Using various packages I could define a mixed model (eg using glmmPQL() in MASS) with similar correlation structure, but I seem to need to define a random effect to use glmmPQL(), and I don't have any. Could this requirement be switched off and still use the mixed model approach? Alternatively, it may be possible to define the variance appropriately in gls and use logits directly, but I'm not quite sure how and suspect there's a more straight-forward alternative. Looking at geoRglm suggests there may be solutions here, but it seems like it might be overkill for what is, at first appearance at least, not such a difficult problem. Maybe I'm just being statistically naive, but I think I'm looking for a function somewhere between gls() and glmmPQL() and would be grateful for any pointers. Thanks very much, Colin Beale ... __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab
(Ted Harding) [EMAIL PROTECTED] writes: This is definitely a case where dynamic rescaling could save hassle! Brian Ripley's suggestion involves first building a matrix whose columns are the replications and rows the time-points, and Robin Hankin's could be easily adapted to do the same, though I think would involve a loop over columns and some very long vectors. How much easier it would be with dynamic scaling! Cue grid graphics... (and Paul's new book) -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] finalize objects
Hello!
How to set function for the whole R-class to be executed when the object
is no more referenced from R and garbage collection takes place? I need
the function to be applied for the whole class (let it be someRClass)
like this someRClass.on.finalize-function(...){...}. I have found
reg.finalizer function in the manuals, but it apply for the class
instance, the thing that I do not like.
What is the solution?
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Re: [R] Misbehaviour of DSE
On Mon, Jul 11, 2005 at 08:27:40AM -0700, Rob J Goedman wrote: Ajay, After installing both setRNG (2004.4-1, source or binary) and dse (2005.6-1, source only), it works fine. Thanks! :-) Now dse1 works, but I get: library(dse2) Warning message: replacing previous import: acf in: namespaceImportFrom(self, asNamespace(ns)) Should I worry? -- Ajay Shah Consultant [EMAIL PROTECTED] Department of Economic Affairs http://www.mayin.org/ajayshah Ministry of Finance, New Delhi __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] testing for significance in random-effect factors using lmer
On 7/12/05, [EMAIL PROTECTED] [EMAIL PROTECTED] wrote: Hi, I would like to know whether it is possible to obtain a value of significance for random effects when aplying the lme or related functions. The default output in R is just a variance and standard deviation measurement. I feel it would be possible to obtain the significance of these random effects by comparing models with and without these effects. However, I'm not used to perform this in R and I would thank any easy guide or example. It is possible to do a likelihood ratio test on two fitted lmer models with different specifications of the random effects. The p-value for such a test is calculated using the chi-squared distribution from the asymptotic theory which does not apply in most such comparisons because the parameter for the null hypothesis is on the boundary of the parameter region. The p-value shown will be conservative (that is, it is an upper bound on the true p-value). For example library(mlmRev) Loading required package: lme4 Loading required package: Matrix Loading required package: lattice options(show.signif.stars = FALSE) (fm1 - lmer(normexam ~ standLRT + sex + type + (1|school), Exam)) Linear mixed-effects model fit by REML Formula: normexam ~ standLRT + sex + type + (1 | school) Data: Exam AIC BIClogLik MLdeviance REMLdeviance 9357.384 9395.237 -4672.692 9325.485 9345.384 Random effects: Groups NameVariance Std.Dev. school (Intercept) 0.084367 0.29046 Residual 0.562529 0.75002 # of obs: 4059, groups: school, 65 Fixed effects: Estimate Std. Error DF t value Pr(|t|) (Intercept) -1.7233e-03 5.4982e-02 4055 -0.0313 0.97500 standLRT 5.5983e-01 1.2448e-02 4055 44.9725 2.2e-16 sexM-1.6596e-01 3.2812e-02 4055 -5.0579 4.426e-07 typeSngl 1.6546e-01 7.7428e-02 4055 2.1369 0.03266 (fm2 - lmer(normexam ~ standLRT + sex + type + (standLRT|school), Exam)) Linear mixed-effects model fit by REML Formula: normexam ~ standLRT + sex + type + (standLRT | school) Data: Exam AIC BIClogLik MLdeviance REMLdeviance 9316.573 9367.043 -4650.2879281.17 9300.573 Random effects: Groups NameVariance Std.Dev. Corr school (Intercept) 0.082477 0.28719 standLRT0.015081 0.12280 0.579 Residual 0.550289 0.74181 # of obs: 4059, groups: school, 65 Fixed effects: Estimate Std. Error DF t value Pr(|t|) (Intercept) -0.0207270.052548 4055 -0.3944 0.69327 standLRT 0.5541010.020117 4055 27.5433 2.2e-16 sexM -0.1679710.032281 4055 -5.2034 2.054e-07 typeSngl 0.1763900.069587 4055 2.5348 0.01129 anova(fm2, fm1) Data: Exam Models: fm1: normexam ~ standLRT + sex + type + (1 | school) fm2: normexam ~ standLRT + sex + type + (standLRT | school) Df AIC BIC logLik Chisq Chi Df Pr(Chisq) fm1 6 9357.4 9395.2 -4672.7 fm2 8 9316.6 9367.0 -4650.3 44.811 2 1.859e-10 At present the anova method for lmer objects does not allow comparison with models that have no fixed effects. Writing that code is on my ToDo list but not currently at the top. It is possible to use anova to compare models fit by lme with models fit by lm (with the same caveat about the calculated p-value being conservative). An interesting alternative approach is to use Metropolis-Hastings sampling for a MCMC chain based on the fitted model and create HPD intervals from such a sample. I have a prototype function to do this for generalized linear mixed models in versions 0.97-3 and later of the Matrix package (currently hidden in the namespace and not documented but the interested user can look at Matrix:::glmmMCMC). It happens that I developed the generalized linear version of this before developing a version for linear mixed models but the lmm version will be forthcoming. Thanks. -- Eduardo Moisés García Roger Institut Cavanilles de Biodiversitat i Biologia Evolutiva - ICBIBE. Tel. +34963543664 Fax +34963543670 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] problems with MNP
Hi all, Does anybody have a hint on what may be going wrong in this R code? I mimic the sample code from the MNP developers but I seem unable to get the choice specific variables right. Thanks, Joan Serra rm(list=ls()) library(foreign) small-read.spss(small.sav) Warning message: small.sav: Unrecognized record type 7, subtype 13 encountered in system file. library(MNP) MNP: R Package for Fitting the Multinomial Probit Models Version: 1.3-1 URL: http://www.princeton.edu/~kimai/research/MNP.html res1 - mnp(PREVOTE3 ~ 1, choiceX = list(1=UCLC, 2=UDLC, 3=UPLC), Error: syntax error cXnames = ut, data = small, n.draws = 500, burnin = 100, Error: syntax error verbose = TRUE) Error: syntax error # another try giving arbitrary names to the values of the dependent variable res1 - mnp(PREVOTE3 ~ 1, choiceX = list(Clinton=UCLC, Dole=UDLC, Perot=UPLC), + cXnames = ut, data = small, n.draws = 500, burnin = 100, + verbose = TRUE) The base category is `1'. The total number of alternatives is 3. Error in xmatrix.mnp(formula, data = eval.parent(data), choiceX = call$choiceX, : Error: Invalid input for `choiceX.' Some variables do not exist. # another try using a string type dependent variable res1 - mnp(PRVOTE3 ~ 1, choiceX = list(Clinton=UCLC, Dole=UDLC, Perot=UPLC), + cXnames = ut, data = small, n.draws = 500, burnin = 100, + verbose = TRUE) Error in model.frame(formula, rownames, variables, varnames, extras, extranames, : invalid variable type __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Is there a working XML parser for the windows R Version 2.0.1
Dear all the regular XML package does not work correctly with the R 2.0.1 windows version. Can anybody indicate a suitable alternative ? I need to dynamically read, parse and process a HTML table in R that is available at a certain url. Regards Soren Wilkening -- CENSIX Consulting [EMAIL PROTECTED] http://www.censix.com __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Is there a working XML parser for the windows R Version 2.0.1
On 7/13/05, Soren Wilkening [EMAIL PROTECTED] wrote: Dear all the regular XML package does not work correctly with the R 2.0.1 windows version. Can anybody indicate a suitable alternative ? I need to dynamically read, parse and process a HTML table in R that is available at a certain url. Is this a one-time transfer or does the information change and you have to do it completely automatically on a repeated basis? In the first case, select the table, copy it to the clipboard, paste it into Excel and then transfer it to R from there. In the second case you could use RDCOMClient or rcom packages to get it via Internet Explorer -- although that would be more involved and, in particular, requires that you learn the IE COM interface. There may or may not be some discussion in the rcom list archives: http://mailman.csd.univie.ac.at/pipermail/rcom-l/ on this approach. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Is there a working XML parser for the windows R Version 2 .0.1
I do not know if current XML package suppose to work for windows R Version 2.0.1; however, current version of XML works fine for current version of R (2.1.1). Also, version of XML available when R Version 2.0.1 was current, worked just fine as well. So the answer might be to update your R version. My System is: - R version: R 2.1.1 - Operating System: Win XP - Compiler: mingw32-gcc-3.4.2 Jarek \=== Jarek Tuszynski, PhD. o / \ Science Applications International Corporation \__,| (703) 676-4192 \ [EMAIL PROTECTED] `\ -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Soren Wilkening Sent: Wednesday, July 13, 2005 9:16 AM To: r-help@stat.math.ethz.ch Subject: [R] Is there a working XML parser for the windows R Version 2.0.1 Dear all the regular XML package does not work correctly with the R 2.0.1 windows version. Can anybody indicate a suitable alternative ? I need to dynamically read, parse and process a HTML table in R that is available at a certain url. Regards Soren Wilkening -- CENSIX Consulting [EMAIL PROTECTED] http://www.censix.com __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] unexpected par('pin') behaviour
hi everybody, I noticed the following: in one of my scripts 'layout' is used to generate a (approx. square) grid of variable dimensions (depending on no. of input files). if the no. of subplots (grid cells) becomes moderately large (say 9) I use a construct like ###layout grid computation and set up occurs here### ... opar - par(no.readonly = T); on.exit(par(opar)) par(mar=c(4.1, 4.1, 1.1, .1)) ###plotting occurs here ... to reduce the figure margins to achieve a more compact display. apart from 'mar' no other par() setting is modified. this works fine until the total number of subplots becomes too large (large depending on the current size of the X11() graphics device window, e.g. 7 x 6 subplots for the default size fo x11()). I then get the error message (only _after_ all plots are correctly displayed, i.e. obviously during execution of the above on.exit() call) Error in par(opar) : invalid value specified for graphics parameter pin and par(pin) yields: [1] 0.34864 -0.21419 which indeed is invalid (negative 2nd component). I'm aware of this note from ?par: The effect of restoring all the (settable) graphics parameters as in the examples is hard to predict if the device has been resized. Several of them are attempting to set the same things in different ways, and those last in the alphabet will win. In particular, the settings of 'mai', 'mar', 'pin', 'plt' and 'pty' interact, as do the outer margin settings, the figure layout and figure region size. but my problem occurs without any resizing of the x11() window prior to resetting par to par(opar). any ideas, what is going on? platform powerpc-apple-darwin7.9.0 arch powerpc os darwin7.9.0 system powerpc, darwin7.9.0 status Patched major2 minor1.0 year 2005 month05 day 12 language R regards, joerg __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Rd.sty, Sweave, tex4ht
Hi
I'm using Sweave with tex4th to generate xhtml documents
However there seems to be a problem with \Link defined in
Rd.sty, since this is also defined in tex4ht.sty
My workaround was to replace the lines with
\newcommand{\Link} by \providecommand{\Link}
in Rd.sty
I'm therefore wondering whether this is the best solution, and if so
whether this could be changed in the original Rd.sty shipped with R.
A possible inconvenient is that \providecommand seems to be specific to
LaTeX and apparently does not work with TeX
Thanks
P.J.
Paulo Justiniano Ribeiro Jr
LEG (Laboratório de Estatística e Geoinformação)
Departamento de Estatística
Universidade Federal do Paraná
Caixa Postal 19.081
CEP 81.531-990
Curitiba, PR - Brasil
Tel: (+55) 41 3361 3573
Fax: (+55) 41 3361 3141
e-mail: [EMAIL PROTECTED]
http://www.est.ufpr.br/~paulojus
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[R] texture in barplots?
Dear R list, For some reason I am unable to access neither search.r-project.org, nor http://finzi.psych.upenn.edu/ so I cannot search the archives for a possible answer (I Googled for this but didn't find anything). Is it possible to draw barplots using a texture instead of colors, for a black and white printer? TIA, Adrian -- Adrian Dusa Arhiva Romana de Date Sociale Bd. Schitu Magureanu nr.1 Tel./Fax: +40 21 3126618 \ +40 21 3120210 / int.101 -- This message was scanned for spam and viruses by BitDefender. For more information please visit http://linux.bitdefender.com/ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Random fractal generator in R ?
Does one of the packages of R include functions to generate random fractals as for instance outlined in http://classes.yale.edu/fractals ? Heinz Schild __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
Adrian Dusa schrieb: Is it possible to draw barplots using a texture instead of colors, for a black and white printer? barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] any reference to get started clustering
Dear All, Just start to use the long expected R, my focus will be doing clustering on microarray data, just wonder, anyone can show me any references to conquer the steep learning curve? Thanks! Best regards, Baoqiang Cao __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
On Wednesday 13 July 2005 17:36, Knut Krueger wrote: Adrian Dusa schrieb: Is it possible to draw barplots using a texture instead of colors, for a black and white printer? barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. with regards Knut Krueger http://www.biostatistic.de Thank you, I read about density but they only seem to draw diagonal lines (differing in the number of lines per inch). I am looking for different *types* of texture (i.e. maybe I could reverse the shading lines, or cross-lines or something like that). All the best, Adrian -- Adrian Dusa Arhiva Romana de Date Sociale Bd. Schitu Magureanu nr.1 Tel./Fax: +40 21 3126618 \ +40 21 3120210 / int.101 -- This message was scanned for spam and viruses by BitDefender. For more information please visit http://linux.bitdefender.com/ __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] nlme, MASS and geoRglm for spatial autocorrelation?
-Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Behalf Of Beale, Colin Sent: 13 July 2005 10:15 To: Prof Brian Ripley Cc: r-help@stat.math.ethz.ch Subject: Re: [R] nlme, MASS and geoRglm for spatial autocorrelation? My data are indeed bernoulli and not binomial, as I indicated. The dataset consists of points (grid refs) that are either locations of events (animals) or random points (with no animal present). For each point I have a suite of environmental covariates describing the habitat at this point. I was anticipating some sort of function that could run: function(present ~ env1 + env2 + env3 + x + y, correlation = corSpher(form=~x+y), family = binomial) where env1 to env3 are the habitat covariates, x y the grid refs. If my data were normal, I undertand I would use gls() with exactly this, but drop the family requirement. As my data are bernoulli this is clearly not possible, but I was hoping the analysis may be analagous? The eventual aim is to firstly understand which environmental covariates are important in determining presence and then to use habitat maps to identify the areas expected to be most important. This could be done with geoRglm. I did something similar last week, but without covariates, only the spatial coordinates (i.e. my spatial process had expectation equal to a constant). If you are willing to sacrifice some spatial resolution you can create cells in your spatial data (say 100 m x 100 m) and in each cell count the number of successes in observing your spatial process and the number of trials. This will be a binomial problem and it seems to me to be the spatial equivalent of logistic regression where the predictor continuous variable is structured in bins and then events are counted in those bins. You can move to the R-sig-geo list if you have questions about geoRglm https://stat.ethz.ch/mailman/listinfo/r-sig-geo Btw, this can also be done in SAS using the glimmix macro. Ruben __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] any reference to get started clustering
Welcome to R. The learning curve is well worth the benefits. If you are used to Eisen clustering and other fancy softwares to do clustering, then you might be a little disappointed with R's clustering ability of thousands of genes. But then again clustering is an exploratory tool and I see no reason why it should be the only analysis that some papers on microarray seem to focus on. My own bias aside, there are functions called heatmap, hclust that might useful. You might to check out the documentation and workshop section of BioConductor (http://www.bioconductor.org/) which have R packages designed for the analysis of genomic data. But you should definitely try to read the Introduction to R first http://cran.r-project.org/doc/manuals/R-intro.html and other documents. Regards, Adai On Wed, 2005-07-13 at 10:49 -0400, Baoqiang Cao wrote: Dear All, Just start to use the long expected R, my focus will be doing clustering on microarray data, just wonder, anyone can show me any references to conquer the steep learning curve? Thanks! Best regards, Baoqiang Cao __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] R and stats courses
Apologies for cross-posting -- Final call. There are still 3 places available on each course -- We would like to announce three statistics courses in and around Aberdeen, UK Course 1: Regression, GLM, GAM, mixed modelling and tree models Course 2: Multivariate analysis and multivariate time series analysis Course 3: An introduction to R Various modules are part of a EU MSc and UK MSc. Course 1: When: Monday 25 July until Friday 29 July 2005 Where: Scottish Agricultural College (SAC), Aberdeen, UK. Course: Analysing biological and environmental data using univariate methods. Course 2: When: Monday 1 August until Friday 5 August 2005 Where: Newburgh. Course: Analysing biological and environmental data using multivariate analysis and multivariate time series analysis Course 3: An introduction to R. When: 29-31 August 2005 (Monday-Wednesday). Location: The Ythan hotel in Newburgh. Host: Organised by Highland Statistics Ltd. Information and registration: www.brodgar.com/statscourse.htm Kind regards, Alain Zuur Dr. Alain F. Zuur Highland Statistics Ltd. 6 Laverock road UK - AB41 6FN Newburgh Tel: 0044 1358 788177 Email: [EMAIL PROTECTED] Our statistics courses: 1. Analysing biological and environmental data using univariate and multivariate methods. 2. Analysing biological and environmental data using univariate methods 3. Analysing biological and environmental data using multivariate analysis and multivariate time series analysis 4. An introduction to R Brodgar: Software for univariate and multivariate analysis and multivariate time series analysis Brodgar complies with R GNU GPL license Statistical consultancy, courses, data analysis and software __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
Knut Krueger schrieb: Adrian Dusa schrieb: Is it possible to draw barplots using a texture instead of colors, for a black and white printer? barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. forgot something you could also set the angle and the color of the lines barplot(height,.,col=c(blue,blue,blue,green),density=c(4,6,8,10),angle=c(15,30,60,90), ...) with regards Knut Krueger http://www.biostatistic.de [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Name for factor's levels with contr.sum
Dear Ghislain I do not know a general elegant solution, but for some applications the following example may be helpful: ## Artificial data for demonstration: group is fixed, species is random dat - data.frame(group = c(rep(A,20),rep(B,17),rep(C,24)), species = c(rep(sp1, 4), rep(sp2,5), rep(sp3,5), rep(sp4,6), rep(sp5,2), rep(sp6,5), rep(sp7,3), rep(sp8,3), rep(sp9,4), rep(sp10,6), rep(sp11,6), rep(sp12,6), rep(sp13,6)), area = rnorm(61)) ## You can attach a contrast at your fixed factor of interest group ## Create the contrast you like to test (in our case contr.sum for 3 ## levels) mat - contr.sum(3) ## You can add the names you want to see in the output ## Be carefull that you give the correct names to the concerned ## column. Otherwise there is the big danger of misinterpretation. colnames(mat) - c(: A against rest, : B against rest) ## Attatch the contrast at your factor group dat[,group] - C(dat[,group],mat) ## Now calculate the lme library(nlme) reg.lme - lme(area ~ group, data = dat, random = ~ 1|species) summary(reg.lme) Maybe someone has a better idea how to do it generally. Hope this helps Christoph Buser -- Christoph Buser [EMAIL PROTECTED] Seminar fuer Statistik, LEO C13 ETH (Federal Inst. Technology) 8092 Zurich SWITZERLAND phone: x-41-44-632-4673 fax: 632-1228 http://stat.ethz.ch/~buser/ -- Ghislain Vieilledent writes: Good morning, I used in R contr.sum for the contrast in a lme model: options(contrasts=c(contr.sum,contr.poly)) Septo5.lme-lme(Septo~Variete+DateSemi,Data4.Iso,random=~1|LieuDit) intervals(Septo5.lme)$fixed lower est. upper (Intercept) 17.0644033 23.106110 29.147816 Variete1 9.5819873 17.335324 25.088661 Variete2 -3.3794907 6.816101 17.011692 Variete3 -0.5636915 8.452890 17.469472 Variete4 -22.8923812 -10.914912 1.062558 Variete5 -10.7152821 -1.865884 6.983515 Variete6 0.2743390 9.492175 18.710012 Variete7 -23.7943250 -15.070737 -6.347148 Variete8 -21.7310554 -12.380475 -3.029895 Variete9 -27.9782575 -17.480555 -6.982852 DateSemi1 -5.7903419 -1.547875 2.694592 DateSemi2 3.6571596 8.428417 13.199675 attr(,label) [1] Fixed effects: How is it possible to obtain a return with the name of my factor's levels as with contr.treatment ? Thanks for you help. -- Ghislain Vieilledent 30, rue Bernard Ortet 31 500 TOULOUSE 06 24 62 65 07 [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Dear R-help community, would any of you have a (preferably simple) example of a presentation-quality .png plot, i.e. one that looks like the .eps plots generated by R? I am working with R 2.0.1 in WindowsXP and am having similar problems as Knut Krueger in printing high-quality plots. I have looked at the help file and examples therein as well as others I have been able to find online but to no avail. After many many tries I have to concede I cannot figure it out. I would be very grateful for your help. Regards, Luis -- Luis Tercero, M.Sc. Engler-Bunte-Institut der Universität Karlsruhe (TH) Bereich Wasserchemie Engler-Bunte-Ring 1 D-76131 Karlsruhe __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] write.foreign, SPSS on Mac OS X
Hello, Thanks for your help Brian. You are correct in assuming that I am trying to use write.foreign to export a data frame for use in SPSS, using the usual format: write.foreign(df, dataFile, codeFile, package=SPSS) Your suggestion that the unprintable characters represent UTF-8 encoded Unicode left and right double quotes also appears correct. Now, although the suggested work-around may well help, the foreign package does seem to be creating a corrupted file. That is, an entirely 8-bit ASCII file containing embedded UTF-8 double quotes is not valid by any standard -- and is thus unreadable by any editor on any platform. Perhaps I should look into filing a bug report on this to the foreign package maintainer. Thanks, Jim Prof Brian Ripley wrote: On Tue, 12 Jul 2005, EJ Nikelski wrote: I have jut installed the foreign package (v 0.8-8) on my OS X machine, and have a bit of a problem writing out a data frame in SPSS format. Specifically, the code file (the .sps format file) seems to write 3 unprintable hex values instead of double quotes. For example, in the following output ... VALUE LABELS / immDel 1 ###1### 2 ###2### 3 ###3### ... emacs tells me that the left-sided ### are the hex codes E2 80 9C, on the right we have E2 80 9D. I am supposing that I should be seeing double-quotes here? Interestingly, the data file, which also contains a quoted field, writes out the quotes without any problem. Does anyone have any ideas? An idea. Those are left and right double quotes in UTF-8 and since MacOS X is usually in a UTF-8 locale they should be printable. However, I suspect that SPSS is expecting ASCII double quotation marks. You haven't told us what you did, but I guess you used write.foreign(package=SPSS). That calls writeForeignSPSS which contains calls to dQuote(), and the latter are wrong if ASCII quotation marks are needed. A quick workaround is to use a non-UTF-8 locale: how you do that on ypur OS depends on how you run R so please ask advice on the R-sig-mac list. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Where's iris?
Hi: Where is the iris data set actually located in the R 2.1.0 folder (under W XP)? Is it a text file or it is a binary file? Ruben __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
Knut Krueger schrieb: Adrian Dusa schrieb: Is it possible to draw barplots using a texture instead of colors, for a black and white printer? barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. forgot something you could also set the angle and the color of the lines barplot(height,.,col=c(blue,blue,blue,green),density=c(4,6,8,10),angle=c(15,30,60,90), ...) with regards Knut Krueger http://www.biostatistic.de __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Where's iris?
help.search(iris) tells you. You should always try R's built-in help resources **before** posting. -- Bert Gunter Genentech Non-Clinical Statistics South San Francisco, CA The business of the statistician is to catalyze the scientific learning process. - George E. P. Box -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Ruben Roa Sent: Wednesday, July 13, 2005 6:55 AM To: R-help@stat.math.ethz.ch Subject: [R] Where's iris? Hi: Where is the iris data set actually located in the R 2.1.0 folder (under W XP)? Is it a text file or it is a binary file? Ruben __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Where's iris?
Ruben Roa wrote: Hi: Where is the iris data set actually located in the R 2.1.0 folder (under W XP)? Is it a text file or it is a binary file? It is a special binary file in package datasets in the binary distribution. Just dump() or write.table() on the data to get a text representation of the data. Uwe Ligges Ruben __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] exact values for p-values
so my chi-square approximation was not very good: pchisq(39540, 1, lower.tail=FALSE, log.p=TRUE) [1] -19775.52 (pchisq(39540, 1, lower.tail=FALSE, log.p=TRUE) + /log(10)) [1] -8588.398 ... roughly 1e-8588. With a few hours with Abramowitz and Stegun, I suspect I could do better. spencer graves David Duffy wrote: This is obtained from F =39540 with df1 = 1, df2 = 7025. Suppose am interested in exact value such as If it were really necessary, you would have to move to multiple precision. The gmp R package doesn't seem to yet cover this, but FMLIB (TOMS814, DM Smith) is a multiple precision f90 library that does include the incomplete beta -- it allows one to say for F(1,7025)=39540, P=6.31E-2886 (evaluated using 200 sign. digit arithmetic). Results from R's pf() agree quite closely with the FMLIB results for less extreme values eg print(pf(1500,1,7025,lower=FALSE), digits=20) [1] 1.3702710894887480597e-297 cf 1.37027108948832580215549799419452388134616261215463681945E-297 | David Duffy (MBBS PhD) ,-_|\ | email: [EMAIL PROTECTED] ph: INT+61+7+3362-0217 fax: -0101 / * | Epidemiology Unit, Queensland Institute of Medical Research \_,-._/ | 300 Herston Rd, Brisbane, Queensland 4029, Australia GPG 4D0B994A v __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Spencer Graves, PhD Senior Development Engineer PDF Solutions, Inc. 333 West San Carlos Street Suite 700 San Jose, CA 95110, USA [EMAIL PROTECTED] www.pdf.com http://www.pdf.com Tel: 408-938-4420 Fax: 408-280-7915 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] maps drawing
Hello, is there a package in R that would allow map drawing: coastlines, country/state boundaries, maybe topography, rivers etc? Thanks for any guidance, Mark __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] maps drawing
m p wrote: Hello, is there a package in R that would allow map drawing: coastlines, country/state boundaries, maybe topography, rivers etc? What about package maps? Moreover, what about reading the posting guide and trying to search yourself at first. I think it is almost impossible not to find maps on CRAN in your case. Uwe Ligges Thanks for any guidance, Mark __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Memory question
One way I do this is to use Luke Tierney's active bindings. I make an active binding of a name to a function which either loads or saves the object. Then the name behaves like the R object it's replacing. This works nicely as long as I don't need lots of random accesses to the matrix. I'd be happy to send the functions I use to do this. Reid Huntsinger -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Kenneth Roy Cabrera Torres Sent: Wednesday, July 13, 2005 7:14 AM To: r-help@stat.math.ethz.ch Subject: [R] Memory question Importance: High Hi R users and developers: I want to know how can I save memory in R for example: - saving on disk a matrix. - using again the matrix (changing their values) - saving again the matrix on disk in a different file. The idea is that I have a process that generate several matrices, but if I keep them all in memory it will overflow. How can I save them in different files, so I use the same amount of memory for each processed matrix? Thank you for your help. -- Kenneth Roy Cabrera Torres Universidad Nacional de Colombia Sede Medellin Tel 430 9351 Cel 315 504 9339 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] maps drawing
Try RSiteSearch(map) or help.search(map) Cheers Francisco From: m p [EMAIL PROTECTED] To: r-help@stat.math.ethz.ch Subject: [R] maps drawing Date: Wed, 13 Jul 2005 09:15:33 -0700 (PDT) Hello, is there a package in R that would allow map drawing: coastlines, country/state boundaries, maybe topography, rivers etc? Thanks for any guidance, Mark __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Fieller's Conf Limits and EC50's
Folks
I have modified an existing function to calculate 'ec/ld/lc' 50 values
and their associated Fieller's confidence limits. It is based on
EC50.calc (writtien by John Bailer) - but also borrows from the dose.p
(MASS) function. My goal was to make the original EC50.calc function
flexible with respect to 1) probability at which to calculate the
expected dose, and 2) the link function. I would appreciate comments
about the validity of doing so! In particular - I want to make sure
that the confidence limit calculations are still valid when changing the
link function.
ec.calc-function(obj,conf.level=.95,p=.5) {
# calculates confidence interval based upon Fieller's thm.
# modified version of EC50.calc found in PB Fig 7.22
# now allows other link functions, using the calculations
# found in dose.p (MASS)
# SBC 19 May 05
call - match.call()
coef = coef(obj)
vcov = summary.glm(obj)$cov.unscaled
b0-coef[1]
b1-coef[2]
var.b0-vcov[1,1]
var.b1-vcov[2,2]
cov.b0.b1-vcov[1,2]
alpha-1-conf.level
zalpha.2 - -qnorm(alpha/2)
gamma - zalpha.2^2 * var.b1 / (b1^2)
eta = family(obj)$linkfun(p) #based on calcs in VR's dose.p
EC50 - (eta-b0)/b1
const1 - (gamma/(1-gamma))*(EC50 + cov.b0.b1/var.b1)
const2a - var.b0 + 2*cov.b0.b1*EC50 + var.b1*EC50^2 -
gamma*(var.b0 - cov.b0.b1^2/var.b1)
const2 - zalpha.2/( (1-gamma)*abs(b1) )*sqrt(const2a)
LCL - EC50 + const1 - const2
UCL - EC50 + const1 + const2
conf.pts - c(LCL,EC50,UCL)
names(conf.pts) - c(Lower,EC50,Upper)
return(conf.pts,conf.level,call=call)
}
Thanks
Stephen Cox
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Re: [R] Please help me.....
Dear Fernando Please read the posting guide. If you want to get an answer to your question you need to be specific about your analysis, and provide examples of the data structure and code that you tried and didn't work. Francisco -- Español Estimado Fernando Por favor lee la guía de publicación de preguntas en el foro. Si quieres recibir una respuesta tienes que especificar los análisis que utilizaste y dar ejemplos con la estructura de tus datos y el código que no funcionó. Francisco From: Fernando Espíndola [EMAIL PROTECTED] To: r-help@stat.math.ethz.ch Subject: [R] Please help me. Date: Tue, 12 Jul 2005 18:42:14 -0400 Hi user R, I am try to calculate the spectrum function in two time series. But when plot a single serie, the labels in axes x is in the range 0.1 to 0.6 (frequency), but when calculate de spectrum with ts.union function, the labels x is in the range 1 to 6. I not understand why change the labels, and not know that is ralationship. Samebody can hel me in this analysis. Thank for all fdo Fernando Espindola R. Division Investigacion Pesquera Instituto de Fomento Pesquero Blanco 839 Valparaiso - CHILE fono: 32 - 322442 [EMAIL PROTECTED] [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] maps drawing
help.search(asdf) only works if you have asdf in something that is installed. RSiteSearch(asdf), on the other hand, works for anything in the R archives. This does NOT include, however, the contents of R News, which you can search via http://www.r-project.org/ - Newsletter - [Table of Contents (all issues)]. spencer graves Francisco J. Zagmutt wrote: Try RSiteSearch(map) or help.search(map) Cheers Francisco From: m p [EMAIL PROTECTED] To: r-help@stat.math.ethz.ch Subject: [R] maps drawing Date: Wed, 13 Jul 2005 09:15:33 -0700 (PDT) Hello, is there a package in R that would allow map drawing: coastlines, country/state boundaries, maybe topography, rivers etc? Thanks for any guidance, Mark __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Spencer Graves, PhD Senior Development Engineer PDF Solutions, Inc. 333 West San Carlos Street Suite 700 San Jose, CA 95110, USA [EMAIL PROTECTED] www.pdf.com http://www.pdf.com Tel: 408-938-4420 Fax: 408-280-7915 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] write.foreign, SPSS on Mac OS X
On Wed, 13 Jul 2005, EJ Nikelski wrote: Your suggestion that the unprintable characters represent UTF-8 encoded Unicode left and right double quotes also appears correct. Now, although the suggested work-around may well help, the foreign package does seem to be creating a corrupted file. That is, an entirely 8-bit ASCII file containing embedded UTF-8 double quotes is not valid by any standard -- and is thus unreadable by any editor on any platform. Perhaps I should look into filing a bug report on this to the foreign package maintainer. It is a bug and has been fixed, but this isn't the reason. It's a bug because the format is wrong for SPSS. The file is perfectly valid UTF-8: all the characters other than the double quotes are 7-bit ASCII and so have the same representation in UTF-8. -thomas __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] write.foreign, SPSS on Mac OS X
On Wed, 13 Jul 2005, EJ Nikelski wrote: Hello, Thanks for your help Brian. You are correct in assuming that I am trying to use write.foreign to export a data frame for use in SPSS, using the usual format: write.foreign(df, dataFile, codeFile, package=SPSS) Your suggestion that the unprintable characters represent UTF-8 encoded Unicode left and right double quotes also appears correct. Now, although the suggested work-around may well help, the foreign package does seem to be creating a corrupted file. That is, an entirely 8-bit ASCII file containing embedded UTF-8 double quotes is not valid by any standard -- and is thus unreadable by any editor on any platform. Perhaps I should Not true: any editor in a UTF-8 locale should be able to read a valid UTF-8 file, and there seems to be a problem with your OS. No one said this had to be an ASCII file, and it will not be if the labels are not ASCII. BTW, `8-bit ASCII' are mutually exclusive terms in file encodings. look into filing a bug report on this to the foreign package maintainer. Which is R-core, and we are already working on a fix. Thanks, Jim Prof Brian Ripley wrote: On Tue, 12 Jul 2005, EJ Nikelski wrote: I have jut installed the foreign package (v 0.8-8) on my OS X machine, and have a bit of a problem writing out a data frame in SPSS format. Specifically, the code file (the .sps format file) seems to write 3 unprintable hex values instead of double quotes. For example, in the following output ... VALUE LABELS / immDel 1 ###1### 2 ###2### 3 ###3### ... emacs tells me that the left-sided ### are the hex codes E2 80 9C, on the right we have E2 80 9D. I am supposing that I should be seeing double-quotes here? Interestingly, the data file, which also contains a quoted field, writes out the quotes without any problem. Does anyone have any ideas? An idea. Those are left and right double quotes in UTF-8 and since MacOS X is usually in a UTF-8 locale they should be printable. However, I suspect that SPSS is expecting ASCII double quotation marks. You haven't told us what you did, but I guess you used write.foreign(package=SPSS). That calls writeForeignSPSS which contains calls to dQuote(), and the latter are wrong if ASCII quotation marks are needed. A quick workaround is to use a non-UTF-8 locale: how you do that on ypur OS depends on how you run R so please ask advice on the R-sig-mac list. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to use the function plot as Matlab?
Ted Harding [EMAIL PROTECTED] 07/13/05 02:12AM
[snip]
I'm not sufficiently acquainted with the internals of plot
and friends to anticipate the answer to this question; but,
anyway, the question is:
Is it feasible to include, as a parameter to plot, lines
and points,
rescale=FALSE
where this default value would maintain the existing behaviour
of these functions, while setting
rescale=TRUE
would allow each succeeding plot, adding graphs using points
or lines, to be rescaled (as in Matlab/Octave) so as to
include the entirety of each successive graph?
I tried editing the range in the result from recordPlot and it
crashed
R on my system, so it probably is not trivial to rescale an existing
plot
on the standard devices. Part of the issue is what information is
saved
when the plot is made and what is recomputed each time. Apparently
octave/matlab and R do this quite differently.
Others have suggested using matplot. you can also manually save all
the relevent information yourself to redo the plots.
The other option is to use a different graphics device that supports
rescaling. One option is rgl using the rgl package and the
rgl.lines function (it will auto rescale, but seems overkill for this
case).
Another option is to go a similar route to octave and to have gnuplot
do the actual plotting (and keep the info to rescale when needed).
Below are some functions I wrote for passing the data to gnuplot
(I am working on windows and downloaded the win32 version of
gnuplot from http://www.gnuplot.info). Some editing may be
neccessary for these to work on other systems. If there is interest
I may debug and expand these functions and include them in a
package.
To do the original example with these functions:
gp.open()
x - seq(0,2,0.1)
gp.plot(x,sin(x), type='l')
gp.plot(x,1.5*cos(x), type='l', add=T)
gp.send('set yrange [-1.6:1.6]') # force my own range
gp.send()
gp.send('set yrange [*:*]') # return to autoscaling
gp.send()
gp.close()
The function definitions are:
gp.open - function(where='c:/progra~1/GnuPlot/bin/pgnuplot.exe'){
.gp - pipe(where,'w')
.gp.tempfiles - character(0)
invisible(.gp)
}
gp.close - function(pipe=.gp){
cat(quit\n,file=pipe)
close(pipe)
if(exists('.gp.tempfiles')){
unlink(.gp.tempfiles)
rm(.gp.tempfiles,pos=1)
}
rm(.gp,pos=1)
invisible()
}
gp.send - function(cmd='replot',pipe=.gp){
cat(cmd, file=pipe)
cat(\n,file=pipe)
invisible()
}
gp.plot - function(x,y,type='p',add=F, title=deparse(substitute(y)),
pipe=.gp){
tmp - tempfile()
.gp.tempfiles - c(.gp.tempfiles, tmp)
write.table( cbind(x,y), tmp, row.names=FALSE, col.names=FALSE
)
w - ifelse(type=='p', 'points', 'lines')
r - ifelse(add, 'replot', 'plot')
cat( paste(r, ',tmp,' with ,w, title
',title,'\n,sep=''),
file=pipe)
invisible()
}
Hope this helps,
Greg Snow, Ph.D.
Statistical Data Center, LDS Hospital
Intermountain Health Care
[EMAIL PROTECTED]
(801) 408-8111
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Re: [R] Help with Mahalanobis
Hello, a proposed solution of Bill Venables is archieved on the S-News mailing list: http://www.biostat.wustl.edu/archives/html/s-news/2001-07/msg00035.html and if I remember it correctly (and if the variance matrix is estimated from the data), another similar way is simply to use the Euclidean distance of rescaled scores of a pricipal component analysis, e.g.: data(iris) dat - iris[1:4] # without the species names z - svd(scale(dat, scale=FALSE))$u cl - hclust(dist(z), method=ward) plot(cl, labels=iris$Species) or alternatively: pc - princomp(dat, cor=FALSE) pcdata - as.data.frame(scale(pc$scores)) cl - hclust(dist(pcdata), method=ward) plot(cl, labels=iris$Species) Hope it helps! Thomas P. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] problems with MNP
Hi Joan, You need to do: res1 - mnp(PREVOTE3 ~ 1, choiceX = list(1=UCLC, 2=UDLC, 3=UPLC), cXnames = ut, data = small, verbose = TRUE) The quotations for 1 etc. are necessary because those are names of the list elements. Also, you should check the convergence of the Markov chain as 500 draws is typically not. In our Journal of Statistical Software paper (available at http://www.princeton.edu/~kimai/research/MNP.html), we show how to do this through some examples. Best, Kosuke - Kosuke Imai Office: Corwin Hall 041 Assistant Professor Phone: 609-258-6601 Department of PoliticseFax: 973-556-1929 Princeton University Email: [EMAIL PROTECTED] Princeton, NJ 08544-1012 http://www.princeton.edu/~kimai - From: Joan Serra [EMAIL PROTECTED] Date: July 13, 2005 6:14:31 AM PDT To: r-help@stat.math.ethz.ch Subject: [R] problems with MNP Hi all, Does anybody have a hint on what may be going wrong in this R code? I mimic the sample code from the MNP developers but I seem unable to get the choice specific variables right. Thanks, Joan Serra rm(list=ls()) library(foreign) small-read.spss(small.sav) Warning message: small.sav: Unrecognized record type 7, subtype 13 encountered in system file. library(MNP) MNP: R Package for Fitting the Multinomial Probit Models Version: 1.3-1 URL: http://www.princeton.edu/~kimai/research/MNP.html res1 - mnp(PREVOTE3 ~ 1, choiceX = list(1=UCLC, 2=UDLC, 3=UPLC), Error: syntax error cXnames = ut, data = small, n.draws = 500, burnin = 100, Error: syntax error verbose = TRUE) Error: syntax error # another try giving arbitrary names to the values of the dependent variable res1 - mnp(PREVOTE3 ~ 1, choiceX = list(Clinton=UCLC, Dole=UDLC, Perot=UPLC), + cXnames = ut, data = small, n.draws = 500, burnin = 100, + verbose = TRUE) The base category is `1'. The total number of alternatives is 3. Error in xmatrix.mnp(formula, data = eval.parent(data), choiceX = call$choiceX, : Error: Invalid input for `choiceX.' Some variables do not exist. # another try using a string type dependent variable res1 - mnp(PRVOTE3 ~ 1, choiceX = list(Clinton=UCLC, Dole=UDLC, Perot=UPLC), + cXnames = ut, data = small, n.draws = 500, burnin = 100, + verbose = TRUE) Error in model.frame(formula, rownames, variables, varnames, extras, extranames, : invalid variable type __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting- guide.html -- Andrew D. Martin, Ph.D. Associate Professor of Political Science Director, Program in Applied Statistics and Computation Professor of Law (by courtesy) Washington University in St. Louis (314) 935-5863 (Office) (314) 753-8377 (Cell) (314) 935-5856 (Fax) Office: Eliot Hall 326 Email: [EMAIL PROTECTED] WWW: http://adm.wustl.edu __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to increase memory for R on Soliars 10 with 16GB and 64bit R
Thank you very much for your help!! Now, it runs without any problem. Is it going to be fixed in the next release? Thanks again, Dongseok Dongseok Choi, Ph.D. Assistant Professor Division of Biostatistics Department of Public Health Preventive Medicine Oregon Health Science University 3181 SW Sam Jackson Park Road, CB-669 Portland, OR 97239-3098 TEL) 503-494-5336 FAX) 503-494-4981 [EMAIL PROTECTED] Prof Brian Ripley [EMAIL PROTECTED] 07/13/05 12:03 AM On Tue, 12 Jul 2005, Dongseok Choi wrote: My machine is SUN Java Workstation 2100 with 2 AMD Opteron CPUs and 16GB RAM. R is compiled as 64bit by using SUN compilers. I trying to fit quantile smoothing on my data and I got an message as below. fit1-rqss(z1~qss(cbind(x,y),lambda=la1),tau=t1) Error in as.matrix.csr(diag(n)) : cannot allocate memory block of size 2496135168 The lengths of vector x and y are both 17664. I tried and found that the same command ran with x[1:16008] and y[1:16008]. So, it looks to me a memory related problem, but I'm not sure how I can allocate memory block. I read the command line option but not sure what do to with it. Could you help me on this? It is trying to allocate a single memory block of size over 2^31-1 bytes. R internally uses ints for sizes of vectors and that is a limit (see help(Memory-limits) ). However, it is intended that on 64-bit systems that there is a limit here of 8*(2^31-1) but there was a typo. Please change line 1534 of src/main/memory.c to #if SIZEOF_LONG 4 and re-compile. -- 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 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] plot the number of replicates at the same point
Dear R-helper, I want to plot the following-like data: x y 1 1 1 1 1 2 1 3 1 3 1 4 .. In the plot that produced, I don't want to show the usual circles or points. Instead, I want to show the number of replicates at that point. e.g. at the position of (1,1), there are 2 obsevations, so a number '2' will be displayed in the plot. Is my narrative clear? Is there a way to make the plot in R? __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] convert to chron objects
Hi, I have a column of a dataframe which has time stamps like: eh$t[1] [1] 06/05/2005 01:15:25 and was wondering how to convert it to chron variable. Thanks a lot. Young. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] plot the number of replicates at the same point
You can do the following (don't know it this is the most efficient way but it works) temp-read.table(your file to read the data, header=T) temp1-table(temp) plot(temp$x, temp$y, cex=0) text(as.numeric(rownames(temp1)), as.numeric(colnames(temp1)), temp1) HTH On Wed, 13 Jul 2005, Kerry Bush wrote: Dear R-helper, I want to plot the following-like data: x y 1 1 1 1 1 2 1 3 1 3 1 4 .. In the plot that produced, I don't want to show the usual circles or points. Instead, I want to show the number of replicates at that point. e.g. at the position of (1,1), there are 2 obsevations, so a number '2' will be displayed in the plot. Is my narrative clear? Is there a way to make the plot in R? __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Efficient testing for +ve definiteness
Dear R-users, Is there a preferred method for testing whether a real symmetric matrix is positive definite? [modulo machine rounding errors.] The obvious way of computing eigenvalues via E - eigen(A, symmetric=T, only.values=T)$values and returning the result of !any(E = 0) seems less efficient than going through the LU decomposition invoked in determinant.matrix(A) and checking the sign and (log) modulus of the determinant. I suppose this has to do with the underlying C routines. Any thoughts or anecdotes? Many Thanks, Makram Talih -- Makram Talih, Ph.D. Assistant Professor Department of Mathematics and Statistics Hunter College of the City University of New York 695 Park Avenue, Room 905 HE New York, NY 10021 Website: http://stat.hunter.cuny.edu/talih E-mail: [EMAIL PROTECTED] Tel: 212-772-5308 Fax: 212-772-4858 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] read.table
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529, ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] convert to chron objects
On 7/13/05, Young Cho [EMAIL PROTECTED] wrote: Hi, I have a column of a dataframe which has time stamps like: eh$t[1] [1] 06/05/2005 01:15:25 and was wondering how to convert it to chron variable. Thanks a lot. Try this: # test data frame eh containing a factor variable t eh - data.frame(t = c(06/05/2005 01:15:25, 06/07/2005 01:15:25)) # substring converts factor to character and extracts substring chron(dates = substring(eh$t, 1, 10), times = substring(eh$t, 12)) See ?chron for more info. There is an article on dates in R News 4/1 and although it does not specifically answer this question it may be useful with chron and also provides a reference to more chron info elsewhere. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
[[alternative HTML version deleted]]
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
On 7/13/05, Luis Tercero [EMAIL PROTECTED] wrote: Dear R-help community, would any of you have a (preferably simple) example of a presentation-quality .png plot, i.e. one that looks like the .eps plots generated by R? I am working with R 2.0.1 in WindowsXP and am having similar problems as Knut Krueger in printing high-quality plots. I have looked at the help file and examples therein as well as others I have been able to find online but to no avail. After many many tries I have to concede I cannot figure it out. I would be very grateful for your help. If you want the highest resolution use a vector format, not a bitmapped format such as png. See: http://maths.newcastle.edu.au/~rking/R/help/04/02/1168.html for some background. [[alternative HTML version deleted]] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
[I had some email problems and am sending this again. Sorry
if you get it twice.]
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] convert to chron objects
[I had some emails problems so I am sending this again. Sorry if you get it twice.] On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote: On 7/13/05, Young Cho [EMAIL PROTECTED] wrote: Hi, I have a column of a dataframe which has time stamps like: eh$t[1] [1] 06/05/2005 01:15:25 and was wondering how to convert it to chron variable. Thanks a lot. Try this: # test data frame eh containing a factor variable t eh - data.frame(t = c(06/05/2005 01:15:25, 06/07/2005 01:15:25)) # substring converts factor to character and extracts substring chron(dates = substring(eh$t, 1, 10), times = substring(eh$t, 12)) See ?chron for more info. There is an article on dates in R News 4/1 and although it does not specifically answer this question it may be useful with chron and also provides a reference to more chron info elsewhere. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
[I had some email problems so I am sending this again. Sorry if you get this twice.] On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote: On 7/13/05, Luis Tercero [EMAIL PROTECTED] wrote: Dear R-help community, would any of you have a (preferably simple) example of a presentation-quality .png plot, i.e. one that looks like the .eps plots generated by R? I am working with R 2.0.1 in WindowsXP and am having similar problems as Knut Krueger in printing high-quality plots. I have looked at the help file and examples therein as well as others I have been able to find online but to no avail. After many many tries I have to concede I cannot figure it out. I would be very grateful for your help. If you want the highest resolution use a vector format, not a bitmapped format such as png. See: http://maths.newcastle.edu.au/~rking/R/help/04/02/1168.html for some background. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
Maybe you don't really need a data frame in the first place?
You were concerned with speed and matrices tend to
have higher performance than data frames.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
there is another problem since last time i forgot byrow :(
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195, byrow=T)
Read 53338155 items
Error: cannot allocate vector of size 416704 Kb
please help with this 'simple' reading task.
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
Try reading it into and transposing the matrix afterwards. Don't know if
that would work but its worth a try. Actually if you
are having problems read it into a vector, check that its of the required
size, just in case, and then turn it into a matrix and transpose it.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
there is another problem since last time i forgot byrow :(
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195, byrow=T)
Read 53338155 items
Error: cannot allocate vector of size 416704 Kb
please help with this 'simple' reading task.
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Where's iris?
On 7/13/05, Ruben Roa [EMAIL PROTECTED] wrote: Hi: Where is the iris data set actually located in the R 2.1.0 folder (under W XP)? Is it a text file or it is a binary file? Ruben Uwe has already explained how to get it in text form; however, if you are curious about its original format in R then its actually stored in iris.R as R source code which you can view at: https://svn.r-project.org/R/trunk/src/library/datasets/data/iris.R (or download the entire R source and get it from there). __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
i think what you meant is
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=195,
ncol=273529)
and then transpose it. However:
Error: cannot allocate vector of size 512000 Kb
the answer is no :(
I think i am going to write my own function to split the result from
scan but not sure if it can be made into matrix or not even if I
succeed.
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
Try reading it into and transposing the matrix afterwards. Don't know if
that would work but its worth a try. Actually if you
are having problems read it into a vector, check that its of the required
size, just in case, and then turn it into a matrix and transpose it.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
there is another problem since last time i forgot byrow :(
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195, byrow=T)
Read 53338155 items
Error: cannot allocate vector of size 416704 Kb
please help with this 'simple' reading task.
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] texture in barplots?
Adrian Dusa [EMAIL PROTECTED] writes: On Wednesday 13 July 2005 17:36, Knut Krueger wrote: Adrian Dusa schrieb: Is it possible to draw barplots using a texture instead of colors, for a black and white printer? barplot(height,.,density=c(4,6,8,10) ...) for each bar one number - this example is for a barplot with 4 bars. with regards Knut Krueger http://www.biostatistic.de Thank you, I read about density but they only seem to draw diagonal lines (differing in the number of lines per inch). I am looking for different *types* of texture (i.e. maybe I could reverse the shading lines, or cross-lines or something like that). This comes up every now and then, and while it seems that everyone thinks fill patterns would be nice to have, I suspect that every attempt to actually implement it have gotten killed in infancy. The thing that is tricky to design right is the cross-device issues. Only some devices support this at all, and when they do, the patterns tend to be device dependent too. Probably not impossible -- there are other bits of the device drivers that deal with missing capabilities, like string rotation and clipping -- just, well, tricky. All the best, Adrian -- Adrian Dusa Arhiva Romana de Date Sociale Bd. Schitu Magureanu nr.1 Tel./Fax: +40 21 3126618 \ +40 21 3120210 / int.101 Um... Romania, I suppose? What city? -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.table
Sorry for last post.
I don't know why i got the error message last time.
but if i did in the following way:
t-scan('train1.dat', sep='|', na.string='.')
t2-matrix(t, nrow=195, ncol=273529)
t3-t(t2)
t4-as.data.frame(t3)
now I got what i needed.
Thanks a lot for Gabor's prompt help.
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
i think what you meant is
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=195,
ncol=273529)
and then transpose it. However:
Error: cannot allocate vector of size 512000 Kb
the answer is no :(
I think i am going to write my own function to split the result from
scan but not sure if it can be made into matrix or not even if I
succeed.
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
Try reading it into and transposing the matrix afterwards. Don't know if
that would work but its worth a try. Actually if you
are having problems read it into a vector, check that its of the required
size, just in case, and then turn it into a matrix and transpose it.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
there is another problem since last time i forgot byrow :(
trn-matrix(scan('train1.dat', sep='|', na.string='.'), nrow=273529,
ncol=195, byrow=T)
Read 53338155 items
Error: cannot allocate vector of size 416704 Kb
please help with this 'simple' reading task.
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
that sort of works for my purpose.
btw, is there a bettter way to get data.frame by passing around
matrix(). Since I could not find data.frame() with nrow or ncol
arguments. so i have to use matrix first and then as.data.frame to
convert it.
is there any other (better) way?
weiwei
On 7/13/05, Gabor Grothendieck [EMAIL PROTECTED] wrote:
You could use the nlines= argument to scan to read in a
portion at a time.
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
add:
I used
trn-matrix(scan('train1.dat', sep='|', na.string='.'),
nrow=273529,
ncol=195)
it is done.
so it seems that I just have no patience to wait for half an hour :)
but i still have that question:
is there a way to track the process if it takes too long. Could we
stop in the middle to see at which line it hesitates to move on?
regards,
weiwei
On 7/13/05, Weiwei Shi [EMAIL PROTECTED] wrote:
Hi,
I have a question on read.table.
I have a dataset with 273,000 lines and 195 columns. I used the
read.table to load the data into R:
trn-read.table('train1.dat', header=F, sep='|', na.strings='.')
I found it takes forever.
then I run 1/10 of the data (test) using read.table again. And
this
time it finished quickly. So, there might be something wrong in my
data format causing that problem.
then, my question is, is there a way in R to track at which line,
something wrong occurs?
Thanks,
Weiwei
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide!
http://www.R-project.org/posting-guide.html
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
--
Weiwei Shi, Ph.D
Did you always know?
No, I did not. But I believed...
---Matrix III
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] High resolution plots
Luis Tercero [EMAIL PROTECTED] writes: Dear R-help community, would any of you have a (preferably simple) example of a presentation-quality .png plot, i.e. one that looks like the .eps plots generated by R? I am working with R 2.0.1 in WindowsXP and am having similar problems as Knut Krueger in printing high-quality plots. I have looked at the help file and examples therein as well as others I have been able to find online but to no avail. After many many tries I have to concede I cannot figure it out. I would be very grateful for your help. What is the real issue here? Import trouble? If you're importing to Word/PowerPoint, why not use the Windows metafile? Perhaps they are too ugly compared to EPS by your taste? Bitmapped formats are a pain to deal with in general. In principle, you could just crank up the resolution to (say) 600 dpi, but if your software rescales the image even slightly, things look horrible. For web graphics, I found a reasonably working solution by plotting at a higher resolution than you need, then smoothing the image slightly and finally rescaling it. This method is archived at http://tolstoy.newcastle.edu.au/R/help/04/06/1094.html, but it does need some unixy tools like the pnm toolchain. I wouldn't know if there are Windows versions of those. -- O__ Peter Dalgaard Øster Farimagsgade 5, Entr.B c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K (*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918 ~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] Proportion test in three-chices experiment
Hi, I wish to analyze with R the results of a perception experiment in which subjects had to recognize each stimulus among three choices (this was a forced-choice design). The experiment runs under two different conditions and the data is like the following: N1 : count of trials in condition 1 p11, p12, p13: proportions of choices 1, 2, and 3 in condition 1 N2 : count of trials in condition 2 p21, p22, p23: proportions of choices 1, 2, and 3 in condition 2 How can I test whether the triple (p11,p12,p13) is different from the triple (p21,p22,p23)? Clearly, prop.test does not help me here, because it relates to two-choices tests. I apologize if the answer is trivial, but I am relatively new to R and could not find any pointers in the FAQ or in the mailing list archives. Thanks in advance for any help, -- Rafael Laboissiere __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] help: how to get the position of a value in a matrix
Hello, I have a data set matrix of 1200 * 15. How can I get the position of a specific value in the matrix? I use seq(along = x)[x value] to look for the position of the value in the matrix, but seq can just find the sequence position row by row in the matrix, not a real position (like rowNumber, colNumber). Is any function for that? Thank you, Shengzhe __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] help: how to get the position of a value in a matrix
Use which(..., arr.ind=TRUE); e.g., m - matrix(runif(12), 3, 4) which(m .8, arr.ind=TRUE) row col [1,] 1 3 [2,] 2 3 [3,] 3 3 [4,] 3 4 m [,1] [,2] [,3] [,4] [1,] 0.2148183 0.08251853 0.9444718 0.4487148 [2,] 0.5386863 0.49673282 0.8054240 0.5101593 [3,] 0.6252847 0.70974516 0.8858951 0.8590655 Andy From: wu sz Hello, I have a data set matrix of 1200 * 15. How can I get the position of a specific value in the matrix? I use seq(along = x)[x value] to look for the position of the value in the matrix, but seq can just find the sequence position row by row in the matrix, not a real position (like rowNumber, colNumber). Is any function for that? Thank you, Shengzhe __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] crossed random fx nlme lme4
I need to specify a model similar to this lme.formula(fixed = sqrt(lbPerAc) ~ y + season + y:season, data = cy, random = ~y | observer/set, correlation = corARMA(q = 6)) except that observer and set are actually crossed instead of nested. observer and set are factors y and lbPerAc are numeric If you know how to do it or have suggestions for reading I will be grateful. eal ps I have already read Pinheiro Bates, the jan 05 newsletter, and several postings. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] help: how to get the position of a value in a matrix
See ?which Hint: arr.ind=TRUE Simon. At 09:28 AM 14/07/2005, wu sz wrote: Hello, I have a data set matrix of 1200 * 15. How can I get the position of a specific value in the matrix? I use seq(along = x)[x value] to look for the position of the value in the matrix, but seq can just find the sequence position row by row in the matrix, not a real position (like rowNumber, colNumber). Is any function for that? Thank you, Shengzhe __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] stripchart usage and alternatives
r=1:10 u=c(a,a,a,b,b,b,c,d,e,e) uf = factor(u) rm = tapply(r, uf, mean) stripchart(r~u,vertical=TRUE,pch=21) stripchart(rm~levels(uf),vertical=TRUE,pch=3,add=TRUE) -- the above code creates a scatter plot of nominal data are there alternatives to generate the same or similar kind of figure? TIA, Mike __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] crossed random fx nlme lme4
At 09:35 AM 14/07/2005, Emilio A. Laca wrote: I need to specify a model similar to this lme.formula(fixed = sqrt(lbPerAc) ~ y + season + y:season, data = cy, random = ~y | observer/set, correlation = corARMA(q = 6)) except that observer and set are actually crossed instead of nested. Does this work for you? (following PB pp 162-3 and an R-help archive search on crossed random effects)... fit - lme(sqrt(lbPerAc) ~ y * season, random=list(pdBlocked(pdIdent(~y), pdIdent(observer-1), pdIdent(set-1))), correlation=corARMA(q = 6), data=cy) lme isn't very well set up for crossed random effects. It's easier in lmer. I don't think lmer can handle alternative correlation structures yet, though. (Prof. Bates?) HTH, Simon. observer and set are factors y and lbPerAc are numeric If you know how to do it or have suggestions for reading I will be grateful. eal ps I have already read Pinheiro Bates, the jan 05 newsletter, and several postings. __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Simon Blomberg, B.Sc.(Hons.), Ph.D, M.App.Stat. Centre for Resource and Environmental Studies The Australian National University Canberra ACT 0200 Australia T: +61 2 6125 7800 email: Simon.Blomberg_at_anu.edu.au F: +61 2 6125 0757 CRICOS Provider # 00120C __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Efficient testing for +ve definiteness
My preference is to test see if the smallest eigenvalue is less than something like sqrt(.Machine$double.eps) times the largest. This may be too conservative, but if the ratio of the smallest to the largest is less than some small number like that, the inverse of such a real symmetric matrix will have very large eigenvalue(s) in potentially unstable directions. R may have other functions beside eigen that will explicitly consider the symmetry of a matrix, but I'm not familiar with them. spencer graves Makram Talih wrote: Dear R-users, Is there a preferred method for testing whether a real symmetric matrix is positive definite? [modulo machine rounding errors.] The obvious way of computing eigenvalues via E - eigen(A, symmetric=T, only.values=T)$values and returning the result of !any(E = 0) seems less efficient than going through the LU decomposition invoked in determinant.matrix(A) and checking the sign and (log) modulus of the determinant. I suppose this has to do with the underlying C routines. Any thoughts or anecdotes? Many Thanks, Makram Talih -- Makram Talih, Ph.D. Assistant Professor Department of Mathematics and Statistics Hunter College of the City University of New York 695 Park Avenue, Room 905 HE New York, NY 10021 Website: http://stat.hunter.cuny.edu/talih E-mail: [EMAIL PROTECTED] Tel: 212-772-5308 Fax: 212-772-4858 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html -- Spencer Graves, PhD Senior Development Engineer PDF Solutions, Inc. 333 West San Carlos Street Suite 700 San Jose, CA 95110, USA [EMAIL PROTECTED] www.pdf.com http://www.pdf.com Tel: 408-938-4420 Fax: 408-280-7915 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Memory question
What kinds of matrices? There are facilities in the Matrix and SparseM packages that might help for sparse matrices. If they are N x k where N is large and k is not, can you compute something like the QR decomposition and get away with keeping only the R part for most of your matrices? One could potentially define a class of matrices that are only kept in memory only when needed; I think S-Plus may do that. It would take a lot of work to make that work generally, but you might be able to accomplish what you need with a much smaller effort. spencer graves Kenneth Roy Cabrera Torres wrote: Hi R users and developers: I want to know how can I save memory in R for example: - saving on disk a matrix. - using again the matrix (changing their values) - saving again the matrix on disk in a different file. The idea is that I have a process that generate several matrices, but if I keep them all in memory it will overflow. How can I save them in different files, so I use the same amount of memory for each processed matrix? Thank you for your help. -- Spencer Graves, PhD Senior Development Engineer PDF Solutions, Inc. 333 West San Carlos Street Suite 700 San Jose, CA 95110, USA [EMAIL PROTECTED] www.pdf.com http://www.pdf.com Tel: 408-938-4420 Fax: 408-280-7915 __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] anova.lmlist output change
R-colleagues I have adapted the anova.lmlist function to use the model object name as the first column in the output instead of the string Model n. If there is general agreement can the change be implemented into the stats package? Regards Ross Darnell -- University of Queensland, Brisbane QLD 4072 AUSTRALIA Email: [EMAIL PROTECTED] __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
