Re: [R] Hunting for snow...
On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. -- 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] last 2 questions about save and load
On Sat, 8 Jul 2006, [EMAIL PROTECTED] wrote: i played around and i get the hang of save and load. I just have two final questions : 1) is loading the RandomFields package the only way to check if a file ( created through the save function ) is out there or not ? Because, I generally won't know if one has been created yet or not. Of course not: See ?file.exists and ?file.info. (RandomFields::FileExists itself depends on file.exists and has a different purpose.) 2) Suppose, you have the case where you created and saved a file. When you do an ls() without loading that file, it doesn't show up in the list obviously. So, if you want to delete that file for whatever reason, is it possible ? Thanks. ls() returns a list of (some) R objects: it has nothing to do with files. Now save()d files contain images of R objects, but the name of the file has nothing to do with the names of the object(s) it contains. -- 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] Hunting for snow...
Prof Brian Ripley wrote: On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. Let me see if I understand this correctly. Something in the finance task view would seem to consider snow a dependency; however, the package in question has dragged it along for the ride into Windows, crippling its usefulness. Problem and a question. Having checked the file on the UofT CRAN mirror that lists dependencies for the available files snow only appears attached to three of them, none of which are listed as part the finance view or anything I already have on my system. What is R seeing these as a dependency for then? Perhaps the view maintainers can suggest something? If it is not available for windows and is only partially functional there can it be safely ignored as a dependency? One other puzzle resulting from this. The check summary suggested problems with 'FracSim', 'RDCOMClient', 'VGAM', and 'segmented' as windows packages but yet the versions I found seemed to install without complaint onto my system. Three gave back the successful unpack msg. VGAM did not, but several of the demo scripts ran without complaint so I am assuming it is comfortable with v2.3.1 on a windows system. Later versions of the four than were tested in the check summary, perhaps? -- Brian Lunergan Nepean, Ontario Canada --- avast! Antivirus: Outbound message clean. Virus Database (VPS): 0627-3, 2006-07-07 Tested on: 2006-07-09 07:39:36 avast! is copyright (c) 2000-2006 ALWIL Software. http://www.avast.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] R
Madame, I've read your answer for using R from Java, you've sais: one is to use R in batch mode ie you create a file in your java code with all the R commands and send it to R (via Process pc=Runtime.getRuntime().exec(Rcall); )and then R creates an outputfile with all the results. My question is how to do a process in Java and do I need to change the path of Java or R to let Java call R, What configuration should I do??? and Do I need to add somehting to a Java program ??? Thank you in advance Xena - [[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] Hunting for snow...
On 7/9/2006 7:39 AM, Brian Lunergan wrote: Prof Brian Ripley wrote: On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. Let me see if I understand this correctly. Something in the finance task view would seem to consider snow a dependency; however, the package in question has dragged it along for the ride into Windows, crippling its usefulness. Problem and a question. Having checked the file on the UofT CRAN mirror that lists dependencies for the available files snow only appears attached to three of them, none of which are listed as part the finance view or anything I already have on my system. What is R seeing these as a dependency for then? Perhaps the view maintainers can suggest something? If it is not available for windows and is only partially functional there can it be safely ignored as a dependency? One other puzzle resulting from this. The check summary suggested problems with 'FracSim', 'RDCOMClient', 'VGAM', and 'segmented' as windows packages but yet the versions I found seemed to install without complaint onto my system. Three gave back the successful unpack msg. VGAM did not, but several of the demo scripts ran without complaint so I am assuming it is comfortable with v2.3.1 on a windows system. Later versions of the four than were tested in the check summary, perhaps? The check summary does more stringent tests than just installing the package. It checks whether the examples will run, and, if the package author supplies some tests, checks that test results match expected results. For example, in the case of FracSim, the error occurred when trying to run the fracsim.1d example. Apparently the example gave no finite values so plot() couldn't set up a coordinate system. (You can see this if you click on the ERROR link in the summary.) Since this appears to be doing random number generation, it may just be that the seed was set to a particularly unlucky value. But the code does assume that no such unlucky values exist... 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] Hunting for snow...
Brian Lunergan wrote: Prof Brian Ripley wrote: On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. Let me see if I understand this correctly. Something in the finance task view would seem to consider snow a dependency; however, the package in question has dragged it along for the ride into Windows, crippling its usefulness. Problem and a question. Having checked the file on the UofT CRAN mirror that lists dependencies for the available files snow only appears attached to three of them, none of which are listed as part the finance view or anything I already have on my system. What is R seeing these as a dependency for then? Perhaps the view maintainers can suggest something? If it is not available for windows and is only partially functional there can it be safely ignored as a dependency? One other puzzle resulting from this. The check summary suggested problems with 'FracSim', 'RDCOMClient', 'VGAM', and 'segmented' as windows packages but yet the versions I found seemed to install without complaint onto my Where did you find them? At least not in their current versions on the official repository on CRAN master for R-2.3.x, I hope. system. Three gave back the successful unpack msg. VGAM did not, but several of the demo scripts ran without complaint so I am assuming it is comfortable with v2.3.1 on a windows system. Later versions of the four than were tested in the check summary, perhaps? The check summary is recent. I can only imagine that you found earlier versions... Uwe Ligges __ 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 on executing JRClient examples
Dear All, I've installed Rserve and I've met in the bin directory of R and I've runn it and it appears //ready to answer the querie// and i've installed the Jrclient and I've put it on the desktop in the directory Jrclient and i've installed JDK and sur I'have the R language. Now when I compile the Jrclient exeamples : I've opened the concole commande and I tape : javac c:\\Jrclient\examples\tt.java,but an error appreas: package org.rosuda.JRclient does not exist , I think that I should change the path of somthing but I don't know what, I'm beginner and there is no steps how to apply the examples... could you please help me?? I need the R language from Java.. Thank you in advance - [[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] Hunting for snow...
Uwe Ligges wrote: Brian Lunergan wrote: Prof Brian Ripley wrote: On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. Let me see if I understand this correctly. Something in the finance task view would seem to consider snow a dependency; however, the package in question has dragged it along for the ride into Windows, crippling its usefulness. Problem and a question. Having checked the file on the UofT CRAN mirror that lists dependencies for the available files snow only appears attached to three of them, none of which are listed as part the finance view or anything I already have on my system. What is R seeing these as a dependency for then? Perhaps the view maintainers can suggest something? If it is not available for windows and is only partially functional there can it be safely ignored as a dependency? One other puzzle resulting from this. The check summary suggested problems with 'FracSim', 'RDCOMClient', 'VGAM', and 'segmented' as windows packages but yet the versions I found seemed to install without complaint onto my Where did you find them? At least not in their current versions on the official repository on CRAN master for R-2.3.x, I hope. FracSim_0.2.zip http://cran.stat.ucla.edu/bin/windows/contrib/2.3/ RDCOMClient_0.91-0.zip http://www.omegahat.org/R/bin/windows/contrib/R-2.3.0/ segmented_0.1-4.zip http://cran.r-project.org/bin/windows/contrib/2.1/ VGAM_0.6-9.zip http://www.stat.auckland.ac.nz/~yee/bin/windows/contrib/2.3/ These are the versions I found and the locations. Other than perhaps segmented all seem to be positioned as compatible with v2.3.x, but I own that I could be incorrect in my assessment of the situation. system. Three gave back the successful unpack msg. VGAM did not, but several of the demo scripts ran without complaint so I am assuming it is comfortable with v2.3.1 on a windows system. Later versions of the four than were tested in the check summary, perhaps? The check summary is recent. I can only imagine that you found earlier versions... -- Brian Lunergan Nepean, Ontario Canada --- avast! Antivirus: Outbound message clean. Virus Database (VPS): 0627-3, 2006-07-07 Tested on: 2006-07-09 09:34:29 avast! is copyright (c) 2000-2006 ALWIL Software. http://www.avast.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] Hunting for snow...
Brian Lunergan wrote: Uwe Ligges wrote: Brian Lunergan wrote: Prof Brian Ripley wrote: On Sat, 8 Jul 2006, Brian Lunergan wrote: Evening folks: I did an install.views of finance and econometrics and between the two of them R reported 'FracSim', 'RDCOMClient', 'snow', 'VGAM', and 'segmented' as missing dependencies. Now, I've managed to hunt down what appear to be current zip file copies of all of the packages but 'snow'. Is there a windows edition of the package out there someplace that will get along with R v2.3.1 and if so, how do I find it? Please and thanks... PLEASE read the README: http://cran.r-project.org/bin/windows/contrib/2.3/@ReadMe and see the check summary at http://cran.r-project.org/bin/windows/contrib/checkSummaryWin.html snow runs distributed R tasks across hosts: it has three modes and prefers PVM and MPI if packages rpvm or Rmpi are available (which they are not for Windows). As a result only some of its functionality can be used on Windows, and anyone who is going to get involved at that level of programming will very easily install the package from the sources. Let me see if I understand this correctly. Something in the finance task view would seem to consider snow a dependency; however, the package in question has dragged it along for the ride into Windows, crippling its usefulness. Problem and a question. Having checked the file on the UofT CRAN mirror that lists dependencies for the available files snow only appears attached to three of them, none of which are listed as part the finance view or anything I already have on my system. What is R seeing these as a dependency for then? Perhaps the view maintainers can suggest something? If it is not available for windows and is only partially functional there can it be safely ignored as a dependency? One other puzzle resulting from this. The check summary suggested problems with 'FracSim', 'RDCOMClient', 'VGAM', and 'segmented' as windows packages but yet the versions I found seemed to install without complaint onto my Where did you find them? At least not in their current versions on the official repository on CRAN master for R-2.3.x, I hope. FracSim_0.2.zip http://cran.stat.ucla.edu/bin/windows/contrib/2.3/ RDCOMClient_0.91-0.zip http://www.omegahat.org/R/bin/windows/contrib/R-2.3.0/ segmented_0.1-4.zip http://cran.r-project.org/bin/windows/contrib/2.1/ VGAM_0.6-9.zip http://www.stat.auckland.ac.nz/~yee/bin/windows/contrib/2.3/ None of them is on CRAN master: - RDCOMClient is on Omegahat - segmented is CRAN but outdated for R-2.1.x - VGAM is in a private repository - FracSim: I cannot access http://cran.stat.ucla.edu/bin/windows/contrib/2.3/ right now, but I guess it does not sync properly. At least, the package should not be there. Uwe Ligges These are the versions I found and the locations. Other than perhaps segmented all seem to be positioned as compatible with v2.3.x, but I own that I could be incorrect in my assessment of the situation. system. Three gave back the successful unpack msg. VGAM did not, but several of the demo scripts ran without complaint so I am assuming it is comfortable with v2.3.1 on a windows system. Later versions of the four than were tested in the check summary, perhaps? The check summary is recent. I can only imagine that you found earlier versions... __ 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] KS Test Warning Message
All, Happy World Cup and Wimbledon. This morning finds me with the first of my many daily questions. I am running a ks.test on residuals obtained from a regression model. I use this code: ks.test(Year5.lm$residuals,pnorm) and obtain this output One-sample Kolmogorov-Smirnov test data: Year5.lm$residuals D = 0.7196, p-value 2.2e-16 alternative hypothesis: two.sided Warning message: cannot compute correct p-values with ties in: ks.test(Year5.lm$residuals, pnorm) I am wondering if anybody can tell me what this error message means. Also, could anybody clarify how I could have a regression model with a high Rsquared, rouglhy .67, but with nonnormal residuals? Does this take away from the validity of my model? jdr __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Problem with garchFit function in fSeries
Without a self-contained example, it's difficult to say for sure. However, this looks to me like false convergence: garchFit uses a nonlinear iteration to try to maximize the likelihood by minimizing (-log(likelihood)). The matrix of second partial derivatives of (-log(likelihood)) provide an approximation to the covariance matrix of the parameter estimates. If it stops before appropriate convergence, some of the diagonal elements of this matrix might be negative. When I listed 'garchFit' just now, I found that the line before the one generating your warning was as follows: fit$cvar = solve(fit$hessian) This seems consistent with what I just said. If you want to try to get around this, I suggest you start by focusing on the argument 'control' mentioned on the help page for 'garchFit'. If you follow that through the help pages for 'nlminb' and 'optim', plus possibly 'demo/xmpDWChapter34.R' mentioned in the examples, I believe you will likely find a way to get around that. First, however, I suggest you plot the data series and take a careful look at it, if you haven't already. Also, you say it worked fine for you with only 1000 of the 1600 observations. Was that observations 1:1000 of this same series? If yes, did you try also observations 601:1600? I just wonder if the data in the last 600 observations behave rather differently from the first 1000? Hope this helps. Spencer Graves p.s. If you'd like further assistance from the listserve, please submit another post. Before you do, however, I suggest you read the posting guide! www.R-project.org/posting-guide.html, especially the part about including a simple, self-contained example. I would NOT recommend you include 1600 observations in an email like this. However, with common R download commands, you might be able to describe in a couple of commands how to get the data, then how you subsetted it, etc. Ivan Kalafatic wrote: I used garchFit function to fit 1600 observations of EURO/USD 2-day returns in GARCH(1,1) model. As part of the summary I got warning message: NaNs produced in: sqrt(diag(fit$cvar)) And didn't get any estimates for 3 params' std.error, t value or probability: Error Analysis: Estimate Std. Error t value Pr(|t|) mu -0.0048270.020141 -0.2400.811 ar1 0.0103110.0269780.3820.702 omega 0.073813 NA NA NA alpha1 0.10 NA NA NA beta1 0.80 NA NA NA When I reduced the sample size to 1000 observations output was ok. Can anyone help? What does this mean? What can be the cause of NA values? Thank you, Ivan [[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] package:Matrix handling of data with identical indices
The apparent contradiction here is again a case of inadequate documentation and checking. Because the order of the triplets in the triplet form of a sparse matrix is essentially random it is permissible to have repeated indices. As you have seen, the interpretation of repeated indices is that the value at any index is the sum of the values in the triplets corresponding to that index. It is not permissible to have repeated indices in the compressed form. In the compressed form there is a well-defined ordering of the indices, first by columns then by row within column and the row indices must be increasing within columns. Your matrix Mc should be flagged as invalid. Martin and I should discuss whether we want to add such a test to the validity method. It is not difficult to add the test but there will be a penalty in that it will slow down all operations on such matrices and I'm not sure if we want to pay that price to catch a rather infrequently occuring problem. There is some documentation of the internal representations of these formats in the directory $R_LIB/Matrix/doc/UFSparse/. The User Guides in that directory are taken directly from the various sparse matrix packages that Tim Davis at the University of Florida has written. He has a book that is scheduled for publication this September Tim Davis (2006), Direct Methods for Sparse Linear Systems, SIAM, Philadelphia, PA I hope we will be able to refer to that book for details of the representation and algorithms. On 7/8/06, Thaden, John J [EMAIL PROTECTED] wrote: In the Matrix package v. 0.995-11 I see that the dgTMatrix Class for compressed, sparse, triplet-form matrices handles Identically indexed data instances by summing their values, e.g., library(Matrix) (Mt - new(dgTMatrix, i = as.integer(c(0,0,1,1,4)), j = as.integer(c(0,1,2,2,4)), x = as.double(1:5), Dim = as.integer(c(5,5 ## 5 x 5 sparse Matrix of class dgTMatrix ## [1,] 1 2 . . . ## [2,] . . 7 . .--- 7 = 3 + 4. ## [3,] . . . . . ## [4,] . . . . . ## [5,] . . . . 5 # If instead I make a dgCMatrix-class matrix, the first # instance is overwritten by the second, e.g., library(Matrix) (Mc - new(dgCMatrix, i = as.integer(c(0,0,1,1,4)), p = as.integer(c(0,1,2,4,5)), x = as.double(1:5), Dim = as.integer(c(5,5 ## 5 x 5 sparse Matrix of class dgCMatrix ## ## [1,] 1 2 . . ## [2,] . . 4 . -- the datum '3' has been lost. ## [3,] . . . . ## [4,] . . . . ## [5,] . . . 5 # If one arrives at the dgCMatrix via the dgTMatrix class, # the summed value is of course preserved, e.g., (Mtc - as(Mt, dgCMatrix)) ## 5 x 5 sparse Matrix of class dgCMatrix ## ## [1,] 1 2 . . . ## [2,] . . 7 . . ## [3,] . . . . . ## [4,] . . . . . ## [5,] . . . . 5 As there is nothing inherent in either compressed, sparse, format that would prevent recognition and handling of duplicated index pairs, I'm curious why the dgCMatrix class doesn't also add x values in those instances? I wonder also if others might benefit also by being able to choose how these instances are handled, i.e., whether they are summed, averaged or overwritten? -John Thaden, Ph.D. Research Assistant Professor of Geriatrics University of Arkansas for Medical Sciences Little Rock AR, USA Confidentiality Notice: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message. __ 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] denominator degrees of freedom and F-values in nlme
On 7/8/06, M R Robinson [EMAIL PROTECTED] wrote: Hello, I am struggling to understand how denominator degrees of freedom and subsequent significance testing based upon them works in nlme models. I have a data set of 736 measurements (weight), taken within 3 different age groups, on 497 individuals who fall into two morphological catagories (horn types). My model is: Y ~ weight + horn type / age group, random=~1|individual I am modeling this using glmm.PQL function with family=neg.bin (negative binomial distribution, estimating theta based upon a glm without individual as a random effect). My data set will not be balanced, with varying numbers of measurements taken on different individuals and some individuals have no weight measures just a morphological type. My output: denDFnumberdf Intercept 495 weight232 1 horn type 495 1 horn type:age 232 4 So my question is where do these denDF come from and how are they calculated? I wish to then test significane of these fixed effects and can get F-ratio's and P-values but are these appropriate? The algorithm for calculating those denominator degrees of freedom is given in Chapter 2 of Pinheiro and Bates (2000), Mixed-effects Models in S and S-PLUS, Springer. It was designed to reproduce the results of the BETWEENWITHIN option in SAS PROC MIXED. On looking at that algorithm recently I no longer feel that it is a good way of doing the calculation but I don't have a better alternative at present. Also, that algorithm and the use of the F test is suggested for linear mixed models. I'm not sure that it would apply out of the box to a generalized liner mixed model, which is what you are fitting here. However, for practical purposes you could assume a worst case of 232 denominator degrees of freedom for all terms because there is so little difference between an F statistic with 232 denominator degrees of freedom and one with 495 denominator degrees of freedom. Thank-you for your time. Kind regards Matthew * Matt Robinson Institute of Evolutionary Biology Room 413, Ashworth Labs, King's Buildings, University of Edinburgh EH9 3JT, UK Tel: 0131 650 5990 __ 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] string problems with \\ (Windows)
Greetings, R-ians: I'm using R 2.3.1 on WindowsXP. I need to find the name of a file at the end of a sting that contains the path + file, with the problematic \\ as separators. The string looks something like this: C:\\Documents and Settings\\myName\\My Documents\\R Projects\\Project1\\file.name.csv What I want is file.name.csv Currently I use the name of the project as the splitter in strsplit(string.name, split=Project1, extended = FALSE) This works, of course, but I won't always be using folder Project1, so I need a more universal way to find the name of a file at the end of a string with \\ separators. Can I get there from here? (I've looked through previous R-help listing of similar problems but if it's there, I missed it.) Thanks. Charles Annis, P.E. [EMAIL PROTECTED] phone: 561-352-9699 eFax: 614-455-3265 http://www.StatisticalEngineering.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] string problems with \\ (Windows)
Try: basename(string.name) On 7/9/06, Charles Annis, P.E. [EMAIL PROTECTED] wrote: Greetings, R-ians: I'm using R 2.3.1 on WindowsXP. I need to find the name of a file at the end of a sting that contains the path + file, with the problematic \\ as separators. The string looks something like this: C:\\Documents and Settings\\myName\\My Documents\\R Projects\\Project1\\file.name.csv What I want is file.name.csv Currently I use the name of the project as the splitter in strsplit(string.name, split=Project1, extended = FALSE) This works, of course, but I won't always be using folder Project1, so I need a more universal way to find the name of a file at the end of a string with \\ separators. Can I get there from here? (I've looked through previous R-help listing of similar problems but if it's there, I missed it.) Thanks. Charles Annis, P.E. [EMAIL PROTECTED] phone: 561-352-9699 eFax: 614-455-3265 http://www.StatisticalEngineering.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
Re: [R] string problems with \\ (Windows)
?basename On 7/9/06, Charles Annis, P.E. [EMAIL PROTECTED] wrote: Greetings, R-ians: I'm using R 2.3.1 on WindowsXP. I need to find the name of a file at the end of a sting that contains the path + file, with the problematic \\ as separators. The string looks something like this: C:\\Documents and Settings\\myName\\My Documents\\R Projects\\Project1\\file.name.csv What I want is file.name.csv Currently I use the name of the project as the splitter in strsplit(string.name, split=Project1, extended = FALSE) This works, of course, but I won't always be using folder Project1, so I need a more universal way to find the name of a file at the end of a string with \\ separators. Can I get there from here? (I've looked through previous R-help listing of similar problems but if it's there, I missed it.) Thanks. Charles Annis, P.E. [EMAIL PROTECTED] phone: 561-352-9699 eFax: 614-455-3265 http://www.StatisticalEngineering.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 -- Jim Holtman Cincinnati, OH +1 513 646 9390 (Cell) +1 513 247 0281 (Home) What is the problem you are trying to solve? [[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] string problems with \\ (Windows)
basename() works. If you're on a system that doesn't think \\ is a path
separator, you could do something like
x - C:\\Documents and Settings\\myName\\My
Documents\\RProjects\\Project1\\file.name.csv
basename(gsub('','/',x))
Duncan Murdoch
Charles Annis, P.E. wrote:
Greetings, R-ians:
I'm using R 2.3.1 on WindowsXP.
I need to find the name of a file at the end of a sting that contains the
path + file, with the problematic \\ as separators.
The string looks something like this:
C:\\Documents and Settings\\myName\\My Documents\\R
Projects\\Project1\\file.name.csv
What I want is file.name.csv
Currently I use the name of the project as the splitter in
strsplit(string.name, split=Project1, extended = FALSE)
This works, of course, but I won't always be using folder Project1, so I
need a more universal way to find the name of a file at the end of a string
with \\ separators.
Can I get there from here? (I've looked through previous R-help listing of
similar problems but if it's there, I missed it.)
Thanks.
Charles Annis, P.E.
[EMAIL PROTECTED]
phone: 561-352-9699
eFax: 614-455-3265
http://www.StatisticalEngineering.com
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[R] distance in kmeans algorithm?
Hello. Is it possible to choose the distance in the kmeans algorithm? I have m vectors of n components and I want to cluster them using kmeans algorithm but I want to use the Mahalanobis distance or another distance. How can I do it in R? If I use kmeans, I have no option to choose the distance. Thanks in advance, Arnau. __ 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] package:Matrix handling of data with identical indices
On 7/8/06, Thaden, John J [EMAIL PROTECTED] wrote: As there is nothing inherent in either compressed, sparse, format that would prevent recognition and handling of duplicated index pairs, I'm curious why the dgCMatrix class doesn't also add x values in those instances? why not multiply them? or take the larger one, or ...? I would interpret this as a case of user negligence -- there is no natural default behavior for such cases. On Jul 9, 2006, at 11:06 AM, Douglas Bates wrote: Your matrix Mc should be flagged as invalid. Martin and I should discuss whether we want to add such a test to the validity method. It is not difficult to add the test but there will be a penalty in that it will slow down all operations on such matrices and I'm not sure if we want to pay that price to catch a rather infrequently occuring problem. Elaborating the validity procedure to flag such instances seems to be well worth the speed penalty in my view. Of course, anticipating every such misstep imposes a heavy burden on developers and constitutes the real cost of more elaborate validity checking. [My 2cents based on experience with SparseM.] url:www.econ.uiuc.edu/~rogerRoger Koenker email [EMAIL PROTECTED] Department of Economics vox:217-333-4558University of Illinois fax:217-244-6678Champaign, IL 61820 __ 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] distance in kmeans algorithm?
You do realize that Mahalanobis distance is just Euclidean distance on some linear transformation of the variables? So all you need to do is to transform the data you pass to kmeans to 'sphere' the Mahalanobis distance. The K means *algorithms* do depend on Euclidean distance (e.g. in choosing the cluster centres as the centroids), so your initial question makes little sense. You can of course use the criterion with other distances, but you need to develop other algorithms to do so. On Sun, 9 Jul 2006, Arnau Mir wrote: Hello. Is it possible to choose the distance in the kmeans algorithm? I have m vectors of n components and I want to cluster them using kmeans algorithm but I want to use the Mahalanobis distance or another distance. How can I do it in R? If I use kmeans, I have no option to choose the distance. Thanks in advance, Arnau. -- 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] Choice of repository and outdated vs unusable... was (Hunting for snow...)
Uwe Ligges wrote: Where did you find them? At least not in their current versions on the official repository on CRAN master for R-2.3.x, I hope. FracSim_0.2.zip http://cran.stat.ucla.edu/bin/windows/contrib/2.3/ RDCOMClient_0.91-0.zip http://www.omegahat.org/R/bin/windows/contrib/R-2.3.0/ segmented_0.1-4.zip http://cran.r-project.org/bin/windows/contrib/2.1/ VGAM_0.6-9.zip http://www.stat.auckland.ac.nz/~yee/bin/windows/contrib/2.3/ None of them is on CRAN master: - RDCOMClient is on Omegahat - segmented is CRAN but outdated for R-2.1.x - VGAM is in a private repository - FracSim: I cannot access http://cran.stat.ucla.edu/bin/windows/contrib/2.3/ right now, but I guess it does not sync properly. At least, the package should not be there. Uwe Ligges Uwe: So VGAM and RDCOMClient are on private repository sites. Is that so important? If a package is not on the CRAN master site are you supposed to avoid using it? The FracSim home site indicated that 0.2 was the current version and a google search yielded the site I indicated, among others, as a repository of an apparent windows edition. That it's not on the master is more an issue between the maintainers of the master and the maintainers of the package, not the average end user IMHO. I found a source for what is apparently the current edition. What's wrong with that? With regard to segmented, outdated does not mean unusable unless later editions of R or packages that call it as a dependency use features particular to later editions. If there is a newer windows edition of segmented then please point out a source for it. Regards... -- Brian Lunergan Nepean, Ontario Canada --- avast! Antivirus: Outbound message clean. Virus Database (VPS): 0627-3, 2006-07-07 Tested on: 2006-07-09 14:35:21 avast! is copyright (c) 2000-2006 ALWIL Software. http://www.avast.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] package:Matrix handling of data with identical indices
On Sunday, July 09, 2006 12:31 PM, Roger Koenker = RK
[EMAIL PROTECTED] wrote
RK On 7/8/06, Thaden, John J [EMAIL PROTECTED] wrote:
JT As there is nothing inherent in either compressed, sparse,
JT format that would prevent recognition and handling of
JT duplicated index pairs, I'm curious why the dgCMatrix
JT class doesn't also add x values in those instances?
RK why not multiply them? or take the larger one,
RK or ...? I would interpret this as a case of user
RK negligence -- there is no natural default behavior
RK for such cases.
This user created example data to illustrate his question, but
of course he faces real data, analytical chemical in this case,
data that happen to come with an 8.4% occurrence of non-unique
index pairs, and also, quite literally, with a natural way
to treat cases (the ~nature~ of the assay makes it correct to
sum them). I can think of other natural data sets where
averaging would be the natural behavior. So you are right
that there is no default natural behavior, thus, my
suggestion to leave that to user choice via function argument
or class slot, defaulted to summing.
Actually in this case there ~is~ one behavior superior to
summing -- abstracting one of the data pair (that share indices)
into a second (very sparse) overlay matrix. Perhaps it is
my negligence not to have done this instead querying the list :-)
I am doing it now.
Regards,
-John Thaden
RK On Jul 9, 2006, at 11:06 AM, Douglas Bates wrote:
DB Your matrix Mc should be flagged as invalid. Martin and I should
DB discuss whether we want to add such a test to the validity method.
It
DB is not difficult to add the test but there will be a penalty in
that
DB it will slow down all operations on such matrices and I'm not sure
if
DB we want to pay that price to catch a rather infrequently occuring
DB problem.
RK Elaborating the validity procedure to flag such instances seems
RK to be well worth the speed penalty in my view. Of course,
RK anticipating every such misstep imposes a heavy burden
RK on developers and constitutes the real cost of more elaborate
RK validity checking.
RK
RK [My 2cents based on experience with SparseM.]
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[R] Error Calculating Mean
I have a vector containing players' weights. When I enter mode(data.linear$Weight) numeric is returned. When I type mean(data.linear$Weight) NA is returned. Any ideas as to why this may be the case? I am trying to calculate this ultimately so I can superimpose a normal density line over a histogram containing the weights? __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Error Calculating Mean
I'd hazard a guess that data.linear$Weight may have a Not Available data point (ie. missing data). f - c(NA,rnorm(10)) mode(f) [1] numeric mean(f) [1] NA If you'd like to compute the mean anyway, you can use mean(f,na.rm=TRUE) [1] 0.3433036 On 7/9/06, justin rapp [EMAIL PROTECTED] wrote: I have a vector containing players' weights. When I enter mode(data.linear$Weight) numeric is returned. When I type mean(data.linear$Weight) NA is returned. Any ideas as to why this may be the case? I am trying to calculate this ultimately so I can superimpose a normal density line over a histogram containing the weights? __ 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 -- Regards, Mike Nielsen __ 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] package:Matrix handling of data with identical indices
Thanks. I see in the UMFPACK manual that the convention for csc matrices
for monotonic-increasing row indices is as you say.
I notice UMFPACK flags errors liberally. What if Matrix or some other
package were made to interface with UMFPACK directly, to tap these and
other features?
-John Thaden
[EMAIL PROTECTED] wrote:
...
...
DB It is not permissible to have repeated indices in the compressed
form. In the compressed form there is a well-defined ordering of the
indices, first by columns then by row within column and the row
indices must be increasing within columns.
DB Your matrix Mc should be flagged as invalid. Martin and I should
discuss whether we want to add such a test to the validity method. It
is not difficult to add the test but there will be a penalty in that
it will slow down all operations on such matrices and I'm not sure if
we want to pay that price to catch a rather infrequently occuring
problem.
DB There is some documentation of the internal representations of these
formats in the directory $R_LIB/Matrix/doc/UFSparse/. The User Guides
in that directory are taken directly from the various sparse matrix
packages that Tim Davis at the University of Florida has written. He
has a book that is scheduled for publication this September
DB Tim Davis (2006), Direct Methods for Sparse Linear Systems, SIAM,
Philadelphia, PA
DB I hope we will be able to refer to that book for details of the
representation and algorithms.
On 7/8/06, Thaden, John J [EMAIL PROTECTED] wrote:
In the Matrix package v. 0.995-11 I see that the dgTMatrix
Class for compressed, sparse, triplet-form matrices handles
Identically indexed data instances by summing their values,
e.g.,
library(Matrix)
(Mt - new(dgTMatrix,
i = as.integer(c(0,0,1,1,4)),
j = as.integer(c(0,1,2,2,4)),
x = as.double(1:5),
Dim = as.integer(c(5,5
## 5 x 5 sparse Matrix of class dgTMatrix
## [1,] 1 2 . . .
## [2,] . . 7 . .--- 7 = 3 + 4.
## [3,] . . . . .
## [4,] . . . . .
## [5,] . . . . 5
# If instead I make a dgCMatrix-class matrix, the first
# instance is overwritten by the second, e.g.,
library(Matrix)
(Mc - new(dgCMatrix,
i = as.integer(c(0,0,1,1,4)),
p = as.integer(c(0,1,2,4,5)),
x = as.double(1:5),
Dim = as.integer(c(5,5
## 5 x 5 sparse Matrix of class dgCMatrix
##
## [1,] 1 2 . .
## [2,] . . 4 . -- the datum '3' has been lost.
## [3,] . . . .
## [4,] . . . .
## [5,] . . . 5
# If one arrives at the dgCMatrix via the dgTMatrix class,
# the summed value is of course preserved, e.g.,
(Mtc - as(Mt, dgCMatrix))
## 5 x 5 sparse Matrix of class dgCMatrix
##
## [1,] 1 2 . . .
## [2,] . . 7 . .
## [3,] . . . . .
## [4,] . . . . .
## [5,] . . . . 5
As there is nothing inherent in either compressed, sparse,
format that would prevent recognition and handling of
duplicated index pairs, I'm curious why the dgCMatrix
class doesn't also add x values in those instances?
I wonder also if others might benefit also by being able
to choose how these instances are handled, i.e.,
whether they are summed, averaged or overwritten?
-John Thaden, Ph.D.
Research Assistant Professor of Geriatrics
University of Arkansas for Medical Sciences
Little Rock AR, USA
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[R] R vs. other software? (was: Software for Epidmiological, Longitudinal Data)
There have been numerous discussions on this listserve of the comparative advantages of R vs. SAS, for example, and various benchmark studies have been published. If you haven't already tried Google, I encourage you to do so. PRIMARY STRENGTHS OF R From my perspective, R is the platform of choice for new statistical algorithm development for a rapidly increasing number of people. The open source nature of R provides huge advantages for learning and for new algorithm development. If I don't understand something, I can walk through the code line by line until I figure it out. That's especially easy with the 'debug' facility in R. Similarly, the ease with which I can experiment with a modification of an existing algorithm depends on the availability of source code for something similar. With commercial software, that obstacle is often insurmountable. With open source, this kind of experimentation is trivial for anyone who is not intimidated by command-driven software. MARKET SHARE The popularity of R can be judged in part from the fact that it is available from 58 mirrors in in 24 countries; those were the numbers I got when I counted a couple of months ago. At that time, the mirror I checked offered free instant access to 724 contributed packages beyond the base distribution, and this does not include much of the 'Bioconductor', which specializes in microarray data. There are occasional difference between mirrors, but those are temporary. At one time, the market dominance of both SAS and IBM was sustained by the perception that 'nobody ever got fired' for using them. Those days are history now for SAS as well as IBM, even with the Food and Drug Administration (FDA), where for many years, SAS was the de facto standard in many pharmaceutical companies for their applications for regulatory approval. I have no data on the use of R in articles submitted to refereed journals, but I'm confident it is growing. Increasingly, when I consider reading an article or buying a book, I look for the availability of a companion R package, because it can make a huge difference in how easily and thoroughly I can absorb the material. SOFTWARE QUALITY The core R distribution seems to be as solid as anything on the market today. Contributed packages run from rock solid to highly buggy. GRAPHICAL USER INTERFACE R does not ship with a GUI, but several are available; see www.sciviews.org/_rgui. I use XEmacs (ESS), mentioned on that web site, but it's primary a command line editor. More GUI-type features are available from other open source software such as SciViews and JGR. TECHNICAL SUPPORT The level of support available from this listserve beats the level of technical support I've ever gotten for any commercial software. Some people's questions never get answered, but that's true with technical support anywhere. Other questions generate a feeding frenzy of replies. This listserve has a posting guide (www.R-project.org/posting-guide.html); I believe that posts that more closely match those guidelines are more likely to be greeted with multiple replies than silence. R-help is on-line, 24-7. If you really want an answer and don't get one in 24 hours, review the posting guide, and think about how you can make your question more clear, perhaps with a different subject line and / or a simple (or simpler) self-contained example. The R Site Search is also great, and now there's an R Wiki. For two other previous comments related to this, see the following: http://finzi.psych.upenn.edu/R/Rhelp02a/archive/51244.html https://stat.ethz.ch/pipermail/r-sig-finance/2004q4/000250.html Hope this helps. Spencer Graves Andrea Meyer wrote: Hello We are a team working on a prospective psychological study. The study design is based on assessing data of three generations of humans over a long time period, wherein epidemiological as well as biological data will be assessed. Sample sizes will range from about 100 to several thousand depending on the research question. Currently we are looking for an apropriate statistical package. Here are some features that the software should have: - strong in the analysis of epidemiological and longitudinal data - platform independent (should run under different operating systems like Windows, Mac OS, Unix) - Ease of use for non-statistic-professionals (i.e. userfriendly GUI) - High acceptance by scientific journals, by the FDA - Importance relative to other packages with respect to the number of users, the number of publications in which the software is used, the market share etc. (including the recent development of these indices!) As we had some problems in finding information concerning these items we would like to ask you where we
[R] How to get R to ignore certain values when analyzing a column in a data table ?
Apologies if this is in (one of the many) manuals somewhere... Trying to switch to R from other stats programs. Basically, I have a large data table I've dumped from a DB, some of the values which are nulls '-' which I've converted to zeros. I've read it in using read.table fine. I want R to ignore the zero values when graphing or doing various other calculations. Is there a way to do this ? I did try to use NA but kept getting errors that x must be numeric. thanks in advance, Daryl. __ 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] problem in my code
Dear R-users
I wrote a small program for assigning a membership
Here is my script
sample.size - 60
x - rnorm(sample.size, 0, 1)
y - rnorm(sample.size, 0, 1)
x.mean - mean(x)
y.mean - mean(y)
membership - numeric(sample.size)
for (i in 1:sample.size)
{
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 1
} else {
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 2
} else {
if ((x[i] x.mean) (y[i]
y.mean))
{
membership[i] - 3
} else
{
membership[i] - 4
}
}
}
}
cbind(x,y,membership)
There is an error message
Error: object membership not found
I can't figure it out.
Any help or advice on improvement for this code will be appreciated.
I konw this code is not well written at all.
Thank you
Taka
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Re: [R] problem in my code
Hi,
How about replacing all - with -? That error occured in
membership[i] - 1
this line and this code stopped before
cbind(x,y,membership)
this line.
Hope this may help you.
---
W. Yamamoto
Dear R-users
I wrote a small program for assigning a membership
Here is my script
sample.size - 60
x - rnorm(sample.size, 0, 1)
y - rnorm(sample.size, 0, 1)
x.mean - mean(x)
y.mean - mean(y)
membership - numeric(sample.size)
for (i in 1:sample.size)
{
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 1
} else {
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 2
} else {
if ((x[i] x.mean) (y[i]
y.mean))
{
membership[i] - 3
} else
{
membership[i] - 4
}
}
}
}
cbind(x,y,membership)
There is an error message
Error: object membership not found
I can't figure it out.
Any help or advice on improvement for this code will be appreciated.
I konw this code is not well written at all.
Thank you
Taka
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[R] about overdispersed poisson model
Dear R users I have been looking for functions that can deal with overdispersed poisson models. According to actuarial literature (England Verall, Stochastic Claims Reserving in General Insurance , Institute of Actiuaries 2002) this can be handled through the use of quasi likelihoods instead of normal likelihoods. However, we see them frequently in this type of data, and we would like to be able to fit the model anyway. If it is possible, would you please show me how to find the corresponding package and utilize them? Best Regards, Chi Kai __ 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] about overdispersed poisson model
You can use glm to analysis this data ,with family=quasipoisson. see ?glm and ?family 2006/7/10, g0354502 [EMAIL PROTECTED]: Dear R users I have been looking for functions that can deal with overdispersed poisson models. According to actuarial literature (England Verall, Stochastic Claims Reserving in General Insurance , Institute of Actiuaries 2002) this can be handled through the use of quasi likelihoods instead of normal likelihoods. However, we see them frequently in this type of data, and we would like to be able to fit the model anyway. If it is possible, would you please show me how to find the corresponding package and utilize them? Best Regards, Chi Kai __ 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 -- 黄荣贵 Department of Sociology Fudan University __ 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] problem in my code
The problem can be reduced to this:
x - 1
x[1] - 2 # error
The following are ok:
x - 1
x[1] - 3
x - 1
x - 4
x - 1
x - 5
Does anyone know why? Is this a bug in - ?
On 7/9/06, Taka Matzmoto [EMAIL PROTECTED] wrote:
Dear R-users
I wrote a small program for assigning a membership
Here is my script
sample.size - 60
x - rnorm(sample.size, 0, 1)
y - rnorm(sample.size, 0, 1)
x.mean - mean(x)
y.mean - mean(y)
membership - numeric(sample.size)
for (i in 1:sample.size)
{
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 1
} else {
if ((x[i] x.mean) (y[i] y.mean))
{
membership[i] - 2
} else {
if ((x[i] x.mean) (y[i]
y.mean))
{
membership[i] - 3
} else
{
membership[i] - 4
}
}
}
}
cbind(x,y,membership)
There is an error message
Error: object membership not found
I can't figure it out.
Any help or advice on improvement for this code will be appreciated.
I konw this code is not well written at all.
Thank you
Taka
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[R] A possible too old question on significant test of correlation matrix
Dear all,
I'm working on a data.frame named en.data, which has n cases and m columns.
I generate the correlation matrix of en.data by
cor(en.data)
I find that there is no p-value on each correlation in the correlation
matrix. I searched in the R-help mail list and found some related
posts, but I didn't find direct way to solve the problem. Someone said
to use cor.test() or t.test(). The problem is that cor.test() and
t.test() can only apply on two vectors, not on a data.frame or a
matrix.
My solution is
for (i in 1:(ncol(en.data) -1)) {
cor.test(en.data[,i], en.data[, i+1])
}
I think it is a stupid way. Is there a direct way to do so? After all,
it is a basic function to generate significant level of a correlation
in a correlation matrix.
Thank you in advance!
Wei-Wei
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