Re: [R] Normality tests
Hi Alexandre, Alexandre Christie wrote: I am new to R, and I am writing to seek your advice on how best to use it to run R's various normality tests in an automated way. In a nutshell, my situation is as follows. I work in an investment bank, and my team and I are concerned that the assumption we make in our models that the returns of assets are normally distributed may not be justified for certain asset classes. We are keen to check this statistically. To this end, we have an Excel document which contains historical data on the returns of the asset classes we want to investigate, and we would like to run R's multiple normality tests on these data to check whether any asset classes are flagged up as being statistically non-normal. I see from the R documentation that there are several R commands to test for this, but is it possible to progamme a tool which can (i) convert the Excel data into a format which R can read, then (ii) run all the relevant tests from R, then (iii) compare the results (such as the p-values) with a user-defined benchmark, and (iv) output a file which shows for each asset class, which tests reveal that the null hypothesis of normality is rejected? The short answer is `yes, this is perfectly possible' by putting all the pieces in an R script file and sourcing it or processing it in batch mode. ad (i): there are several ways of accessing Excel files. Using RODBC is one of them. Section 8 of the R Data Import / Export gives an overview of all options. ad (ii): this is a matter of conducting the tests and storing the test results in appropriate data structure ad (iii): straightforward ad (iv): you did not specify My team and I would be very grateful for your advice on this. Yours sincerely, Alex. __ 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 and provide commented, minimal, self-contained, reproducible code. __ 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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Normality tests
I'm sorry, I pressed a wrong button and sent an incomplete answer. Below follows the completed e-mail. I am new to R, and I am writing to seek your advice on how best to use it to run R's various normality tests in an automated way. In a nutshell, my situation is as follows. I work in an investment bank, and my team and I are concerned that the assumption we make in our models that the returns of assets are normally distributed may not be justified for certain asset classes. We are keen to check this statistically. To this end, we have an Excel document which contains historical data on the returns of the asset classes we want to investigate, and we would like to run R's multiple normality tests on these data to check whether any asset classes are flagged up as being statistically non-normal. I see from the R documentation that there are several R commands to test for this, but is it possible to progamme a tool which can (i) convert the Excel data into a format which R can read, then (ii) run all the relevant tests from R, then (iii) compare the results (such as the p-values) with a user-defined benchmark, and (iv) output a file which shows for each asset class, which tests reveal that the null hypothesis of normality is rejected? The short answer is `yes, this is perfectly possible' by putting all the pieces in an R script file and sourcing it or processing it in batch mode. ad (i): there are several ways of accessing Excel files. Using RODBC is one of them. Section 8 of the R Data Import / Export gives an overview of all options. http://cran.r-project.org/doc/manuals/R-data.html#Reading-Excel-spreadsheets Here's a simple example for RODBC: library(RODBC) z - odbcConnectExcel(rexceltest.xls) dd - sqlFetch(z, Sheet1) close(z) ad (ii): this is a matter of conducting the tests and storing (what you would like to keep from) the test results in an appropriate data structure. ad (iii): should be straightforward as well. ad (iv): you did not specify the output format, but R could write to a.o. a text file, an HTML file, a LaTeX file and if needed an Excel file. Relevant packages include xtable, R2HTML and rcom. HTH, Tobias P.S. It is always a good idea to define small functions for each step in the process and then use these in the function definition of one big function that would be something like checkAssetNormality(file = myassets.xls, otherarg1, otherarg2, outfile = res_myassets.html, outdir = .) P.P.S. R has very neat and powerful graphical capabilities. It is quite easy to rapidly produce large grids of QQ-plots for all the assets concerned. This would give you additional information about the nature of the deviation from normality. My team and I would be very grateful for your advice on this. Yours sincerely, Alex. __ 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 and provide commented, minimal, self-contained, reproducible code. __ 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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] beta regressions in R
Walter R. Paczkowski wrote: Good morning, Does anyone know of a package or function to do a beta regression? http://cran.r-project.org/src/contrib/Descriptions/betareg.html HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] R equivalent to Matlab's Bayes net toolbox
Søren Højsgaard wrote: Jose, I am not entirely sure what Matlabs Bayes net toolbox does, but I guess it implements as propagation algorithm for Bayesian networks. There is no such package on CRAN - yet - but there will be soon: I've created a package called gRbayesnet which implements the Lauritzen-Spiegelhalter propagation algorithm. I expect to upload it to CRAN within the next few days. An alternative could be to extend the current R-Weka interface from Kurt Hornik et alii http://cran.r-project.org/src/contrib/Descriptions/RWeka.html to include as well an interface to the Weka Bayes net package described at http://downloads.sourceforge.net/weka/BayesianNetClassifiers-3.5.6.pdf library(RWeka) ?list_Weka_interfaces describes how to register new interfaces. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Complex surveys, properly computed SEs and non-parametric analyses
Dear John, Can someone direct me to an R function that properly computes standard errors of data obtained from a complex survery design i.e. perform alnalyses similiar to those that can be performed with SUDAAN, articularly for a non-parametric one-way ANOVA, e.g. signed rank test? The survey package of Thomas Lumley has very broad functionality for the analysis of data from complex sampling designs. Please find below the homepage of the package (which is available on CRAN): http://faculty.washington.edu/tlumley/survey/ I don't think non-parametric one-way ANOVA is implemented, but quoting http://faculty.washington.edu/tlumley/survey/survey-wss.pdf slide 101: Many features of the survey package result from requests from unsatisfied users. For new methods the most important information is a reference that gives sufficient detail for implementation. A data set is nice but not critical. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] package with roc, sensitivity, specificity, kappa etc
Fredrik Lundgren wrote: Dear Guru's, Is there a package (R of course) with programs for diagnostics - roc, sens , spec, kappa etc? Your question is not very specific, but you might have a look at the ROCR package for visualizing classifier performance. http://cran.r-project.org/src/contrib/Descriptions/ROCR.html HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] \include-mechanism in Sweave?
Dietrich Trenkler wrote:
Dear HelpeRs,
I'm very fond of Sweave and I use it as often as possible. It'a a pity
I can't use it for larger projects or can I?
For instance suppose I have three files file1.rnw, file2.rnw and
file3.rnw with Sweave code. Working on file2.rnw I whould like to
exclude file1.rnw and file3.rnw temporarily and joining all of them
later. This amounts to a mechanism similar to using LaTeX's \include
command. *Is* there a way to achieve that?
\SweaveInclude{} lets you do just that.
HTH,
Tobias
--
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Business Decision Benelux
Rue de la révolution 8
1000 Brussels - BELGIUM
+32 499 36 33 15
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Re: [R] \include-mechanism in Sweave?
Tobias Verbeke wrote:
Dietrich Trenkler wrote:
Dear HelpeRs,
I'm very fond of Sweave and I use it as often as possible. It'a a pity
I can't use it for larger projects or can I?
For instance suppose I have three files file1.rnw, file2.rnw and
file3.rnw with Sweave code. Working on file2.rnw I whould like to
exclude file1.rnw and file3.rnw temporarily and joining all of them
later. This amounts to a mechanism similar to using LaTeX's \include
command. *Is* there a way to achieve that?
\SweaveInclude{} lets you do just that.
Oops. \SweaveInput{}
Sorry,
Tobias
--
Tobias Verbeke - Consultant
Business Decision Benelux
Rue de la révolution 8
1000 Brussels - BELGIUM
+32 499 36 33 15
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Re: [R] cbind
livia wrote: Hi, I have a series of return data, a and b are factors. I would like to build a matrix which contains each vector of returns. I am thinking about something as following, but I guess there should be a sensible way of doing this. returns - split(return, list(regimef, assetf)) cbind(returns[[1]], returns[[2]],...,returns[[n]]) Does do.call(cbind, returns) do what you want ? HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] : regular expressions: escaping a dot
Wolfram Fischer wrote: What's really the problem with: regexpr( '\.odt$', Yodt, perl=TRUE ) Warning: '\.' is an unrecognized escape in a character string Warning: unrecognized escape removed from \.odt$ [1] 5 attr(,match.length) [1] 4 I know that I could use: regexpr( '[.]odt$', Yodt, perl=TRUE ) But it seems to me that the first expression is also an accepted regular expression in accordance with perl. In R you have to escape the \. From the help page of regexpr: ## Double all 'a' or 'b's; \ must be escaped, i.e., 'doubled' gsub(([ab]), \\1_\\1_, abc and ABC) HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] R logistic regression - comparison with SPSS
Alain Reymond wrote: Dear R-list members, I have been a user of SPSS for a few years and quite new to R. I read the documentation and tried samples but I have some problems to obtain results for a logistic regression under R. The following SPSS script LOGISTIC REGRESSION vir /METHOD = FSTEP(LR) d007 d008 d009 d010 d011 d012 d013 d014 d015 d016 d017 d018 d069 d072 d073 /SAVE = PRED COOK SRESID /CLASSPLOT /PRINT = GOODFIT CI(95) /CRITERIA = PIN(.10) POUT(.10) ITERATE(40) CUT(.5) . predicts vir (value 0 or 1) according to my parameters d007 to d073. It gives me the parameters to retain in the logistic equation and the intercept. The calculation is made from a set of values of about 1.000 cases. I have been unable to translate it with success under R. I would like to check if I can obtain the same results than with SPSS. Can someone help me translate it under R ? I would be most grateful. If all the variables you mention are available in a data frame, e.g. virdf, than you can fit a logistic regression model by mymodel - glm(vir ~ d007 + d008 + d009 + d010 + d011 + d012 + d013 + d014 + d015 + d016 + d017 + d018 + d069 + d072 + d073, data = virdf, family = binomial) or mymodel - glm(vir ~ ., data = virdf, family = binomial) if there are no variables other than those mentioned above in the virdf data frame. Contrary to SPSS you need not specify in advance what you would like as output. Everything useful is stored in the model object (here: mymodel) which can then be used to further investigate the model in many ways: summary(mymodel) anova(mymodel, test = Chisq) plot(mymodel) See ?summary.glm, ?anova.glm etc. For stepwise variable selection (not necessarily corresponding to STEP(LR)), see ?step or ?add1 to do it `by hand'. HTH, Tobias P.S. You can find an introduction to R specifically targeted at (SAS and) SPSS users here: http://oit.utk.edu/scc/RforSASSPSSusers.pdf -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] new data frame for loop
Hi Emily, Emily Broccoli wrote: I have a data frame with three columns, one coded as a factor. I would like to separate my data out into separate data frames according to the factor level. Below is a simple example to illustrate. I can get R to return the data in the correct format but cannot work out how to get separate data frames. I am a newcommer to programming in R so am not sure what I am missing! Thanks, Emily a-seq(1,20, by=2) b-seq(1,30, by=3) ID-as.factor(c(1,1,1,2,2,2,3,3,3,3)) df-data.frame(a,b,ID) The function split will give you a list of data frames split according to a factor: split(df, df$ID) $`1` a b ID 1 1 1 1 2 3 4 1 3 5 7 1 $`2` a b ID 4 7 10 2 5 9 13 2 6 11 16 2 $`3` a b ID 7 13 19 3 8 15 22 3 9 17 25 3 10 19 28 3 See ?split. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Subscript in axis label
[EMAIL PROTECTED] wrote: Dear R help list members, I am experiencing difficulty in trying to generate a subscript '2' in an axis label. Although I can get the '2' into a subscript using expression(), R then forces me to leave at least one space between the '2' and the following character. My label is supposed to read 'N2O concentration (ppm)', and the space between the '2' and the 'O' makes it look rather inelegant! My code is the following (the comments in it are there to stop me forgetting what I have done, I am new to R): postscript(file=/Users/patrickmartin/Documents/York Innova Precision/N2Oinnova.eps, horizontal=FALSE, onefile=FALSE, height=4, width=5, pointsize=10) plot(n2o, lty=0, las=1, xlab=Time, ylab=expression(N[2]~O concentration (ppm))) points(n2o, pch=16) # suppresses line but adds points dev.off() # turns postscript device off again Is this better plot(1:10, ylab = expression(paste(N[2],O concentration (ppm), sep = ))) ? HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] specify font family for postscript device [was: Re: Subscript in axis label]
[EMAIL PROTECTED] wrote: Dear R help list members, snip A related query is that the journal I want to publish this figure in specifies that if EPS format is used, the font should be either Arial, Courier, Helvetica, Times or Symbol. Is one of these the default font for an EPS file in R, and if not, is there a possibility of changing it? See ?postscript and in particular the family argument the details of which are treated in the Families section. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Excel calling R functions
Marc Schwartz wrote: On Fri, 2007-06-01 at 08:50 -0700, Horace Tso wrote: Hi folks, Is it possible to have Excel call a R function. If not, how about making Excel send off a command to call a R script and then read the result back into Excel. I know, I know, this should belong to some Excel forum, but i just try my luck here. Thanks in advance. Horace W. Tso See the R-Excel add-in linked from here: http://www.sciviews.org/_rgui/projects/RDcom.html Some of the files listed in the link on that page appear to be quite outdated. The following link brings you to the current portal of the R(D)COM server and the rcom package. http://sunsite.univie.ac.at/rcom/ See the Excel heading for your question. You might be interested as well by the recent OpenOffice.org plugin (heading OOo). HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] (no subject)
Hi, Iasonas Lamprianou wrote: does anyone know how we can 'control' R from Visual Studio .NET? e.g. start R, send a set of commands, save the results and open the results using Visual Studio. I'm not too familiar with Visual Studio .NET, but on Windows one can use R as a (D)COM Server Application, the use of which could pretty much correspond to the description you gave. See http://sunsite.univie.ac.at/rcom/ for one implementation. The binary you will need is at http://sunsite.univie.ac.at/rcom/download/current/RSrv250_pl1.exe There is a dedicated mailing list searchable from the given website. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] rJava problem
mister_bluesman wrote: Could someone please tell me where I can find a simple example, which does not require linux!, on how I can see if this is working and get me started using rJava. I have read the document 'Getting Started with the R-Java/Omegahat Interface' and have tried to type in things such as .JavaConstructor(JButton, A button) in the R console after loading library(rJava). However i keep getting the error: Error: could not find function .JavaConstructor This function is not part of rJava; cf. library(help = rJava) On the home page of rJava http://www.rforge.net/rJava/ there are very simple examples that can get you started. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Suggestions for statistical computing course
Giovanni Petris wrote: Dear R-helpers, I am planning a course on Statistical Computing and Computational Statistics for the Fall semester, aimed at first year Masters students in Statistics. Among the topics that I would like to cover are linear algebra related to least squares calculations, optimization and root-finding, numerical integration, Monte Carlo methods (possibly including MCMC), bootstrap, smoothing and nonparametric density estimation. Needless to say, the software I will be using is R. 1. Does anybody have a suggestion about a book to follow that covers (most of) the topics above at a reasonable revel for my audience? Are there any on-line publicly-available manuals, lecture notes, instructional documents that may be useful? The course notes for `Advanced Statistical Computing' by Robert Gray covers much of the topics you mentioned and is interspersed with R (1.4.0) code. http://www.stat.wisc.edu/~mchung/teaching/stat471/stat_computing.pdf HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] string edit distance
Thomas Hills wrote: I have a column of words, for example DOG DOOG GOD GOOD DOOR ... and I am interested in creating a matrix that contains the string edit distances between each pair of words. I am this close - ' ' - to writing the algorithm myself (which will allow for different variations on the string edit rules, indels, plus or minus transpositions, and possibly some variations on that), but I figured I'd see if anyone on the list has any experience with this and might already have some shoulders for me to stand on. See http://wiki.r-project.org/rwiki/doku.php?id=tips:data-strings:levenshtein for some R code which might be useful. HTH, Tobias -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] package for Matlab
Schmitt, Corinna wrote: Hallo, does a package for Matlab exist in R? To read and write MAT files, there is the R.matlab package: http://cran.r-project.org/src/contrib/Descriptions/R.matlab.html This package also enables bidirectional communication between R and Matlab. An alternative package with similar functionality (but not on CRAN and according to its home page not yet functional on platforms other than UNIX) is RMatlab http://www.omegahat.org/RMatlab/ To ease translation of Matlab code, there is the matlab package: http://cran.r-project.org/src/contrib/Descriptions/matlab.html HTH, Tobias If yes, where can I find it and how can I install it under R? Thanks, Corinna __ 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 and provide commented, minimal, self-contained, reproducible code. -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Horvitz Thompson Variance
Gen wrote: I am performing linear regression R and would like to incorporate sampling weights. There is a survey package for the analysis of data from complex sample designs of which svyglm might fit your purposes. For the home page of the package (with lots of materials), see http://faculty.washington.edu/tlumley/survey/ HTH, Tobias Does any one know how to obtain Horvitz-Thompson variance estimates when performing linear regression? Thank you for your help. -- Tobias Verbeke - Consultant Business Decision Benelux Rue de la révolution 8 1000 Brussels - BELGIUM +32 499 36 33 15 [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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] SNA Matrix
Salvaj, Erica wrote:
Hello
I export a one mode network from Pajek to R, and the former made an .r file
called PajekR.r, that is actually an script to be run in R
The problem is that what the file actually does is to set a 0 martrix and
then assing to each pair of nodes the corresponding values. Since the matrix
is huge (10.000 nodes) a copy/paste procedure is very time consuming, and I
guess pretty inefficient. So the question is: are there any way to read
directly the .r file in R, without copy and paste the sentences of the script
in the R console?
The command you are looking for is source.
If PajekR.r resides in your working directory, it
is as easy as
source(PajekR.r)
Otherwise replace PajekR.r with the full path to this file.
An other option would be
source(choose.files())
which fires up a GUI that lets you browse for the file.
HTH,
Tobias
Erica H. Salvaj
PhD Candidate
IESE Business School
[EMAIL PROTECTED]
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and provide commented, minimal, self-contained, reproducible code.
Re: [R] R2HTML: request for an extended example
Michael Kubovy wrote: Dear R-helpers, If you know of an extended example of the use of R2HTML, in which the various constructs are present in one place, could you please point me to it or send it to me? There was an article in the R News of December 2003 http://cran.r-project.org/doc/Rnews/ HTH, Tobias _ Professor Michael Kubovy University of Virginia Department of Psychology USPS: P.O.Box 400400Charlottesville, VA 22904-4400 Parcels:Room 102Gilmer Hall McCormick RoadCharlottesville, VA 22903 Office:B011+1-434-982-4729 Lab:B019+1-434-982-4751 Fax:+1-434-982-4766 WWW:http://www.people.virginia.edu/~mk9y/ __ 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 and provide commented, minimal, self-contained, reproducible code. __ 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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] R2HTML: request for an extended example
Michael Kubovy wrote: On Aug 9, 2006, at 9:23 AM, Tobias Verbeke wrote: Michael Kubovy wrote: Dear R-helpers, If you know of an extended example of the use of R2HTML, in which the various constructs are present in one place, could you please point me to it or send it to me? There was an article in the R News of December 2003 http://cran.r-project.org/doc/Rnews/ Thanks, Tobias. That's just what I needed. I ran into a small problem: when I run the following, the HTML is missing some kind of icon at the top. Any ideas how to fix that? HTMLStart(outdir = file.path(/Users, mk, Documents, teach, '2006.3.PSYC712'), echo = T, HTMLframe = F, Title = 'John Doe HW 1') *** Output redirected to directory: /Users/mk/Documents/teach/2006.3.PSYC712 *** Use HTMLStop() to end redirection.[1] TRUE HTML as.title(This is my first title) [1] This is my first title attr(,class) [1] title HTML x - 1 HTML y- 2 HTML x+y [1] 3 HTML HTMLStop() [1] /Users/mk/Documents/teach/2006.3.PSYC712/index.html I adapted your code to my situation (using R2HTML 1.57 on R 2.3.1 under GNU/Linux and Firefox 1.5.0.4 to open the resulting HTML file) and did not notice a missing icon. What browser do you use ? library(R2HTML) HTMLStart(outdir = file.path(/home, tobias, R, packages, R2HTML), # mind the TRUE instead of T and the FALSE instead of F echo = TRUE, HTMLframe = FALSE, Title = John Doe HW 1) as.title(This is my first title) x - 1 y - 2 x + y HTMLStop() --Tobias PS page source code obtained: html xmlns:mml=http://www.w3.org/1998/Math/MathML; head title John Doe HW 1 /title link rel=stylesheet href=R2HTML.css type=text/css object id=mathplayer classid=clsid:32F66A20-7614-11D4-BD11-00104BD3F987/object ?import namespace=mml implementation=#mathplayer? script type=text/javascript src=ASCIIMathML.js/script link href=./runtime/styles/xp/grid.css rel=stylesheet type=text/css /link link href=gridR2HTML.css rel=stylesheet type=text/css /link script src=./runtime/lib/grid.js/script script src=./gridR2HTML.js/script script nequations=0; /script /head body onload=translate() bgcolor= FF background= a name=Num2nbsp;/apxmp class=command as.title(This is my first title)/xmp/p h2 This is my first title/h2 a name=Num3nbsp;/apxmp class=command x - 1/xmp/p a name=Num4nbsp;/apxmp class=command y - 2/xmp/p a name=Num5nbsp;/apxmp class=command x + y/xmp/pp class='numeric'3/p hr size=1 font size=-1 Generated on: IWed Aug 9 21:29:45 2006/i - bR2HTML/b hr size=1 /body /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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Non-metric Multidimensional Scaling in R
[EMAIL PROTECTED] wrote: Hi, I don't think my first email worked, so here it is again. I'd like to know if there is a nonmetric MDS function or package for R. I've beening trying to do a problem in Stata but I'm going crazy with it. A simple problem is becoming difficult so maybe R can help. Any suggestions? library(MASS) ?isoMDS HTH, Tobias Walt Paczkowski __ 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 and provide commented, minimal, self-contained, reproducible code. __ 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 and provide commented, minimal, self-contained, reproducible code.
Re: [R] Export to LaTeX
Mag. Ferri Leberl wrote:
Dear Everybody!
I want to export data to LaTeX. As I want to employ the data as freely as
possible I want to avoid the xtable-command and instead generate some List
like
\MyOwnPrettyCommand{Adam}{Auer}{17}
\MyOwnPrettyCommand{Bertram}{Bauer}{14}
\MyOwnPrettyCommand{Christoph}{Huber}{75}
\MyOwnPrettyCommand{Damian}{Dorfer}{69}
\MyOwnPrettyCommand{Emanuel}{Eder}{43}
with \MyOwnPrittyCommand defined elsewhere.
As a pitty, if I make up about such a table in r, lets call it A, and use
the commands
sink(tabelle.tex)
A
sink(anderedatei)
tabelle.tex will look like this:
[,1] [,2][,3] [,4] [,5] [,6] [,7]
[1,] MyOwnPrettyCommand{ Adam }{ Auer }{ 17 }
[2,] MyOwnPrettyCommand{ Bertram }{ Bauer }{ 14 }
[3,] MyOwnPrettyCommand{ Christoph }{ Huber }{ 75 }
[4,] MyOwnPrettyCommand{ Damian}{ Dorfer }{ 69 }
[5,] MyOwnPrettyCommand{ Emanuel }{ Eder }{ 43 }
So my question is how to export the data properly, without line-indices,
without quotes but WITH backslashes.
mydf - as.data.frame(
rbind(c(Adam, Auer, 17),
c(Bertram, Bauer, 14),
c(Christoph, Huber, 75),
c(Damian,Dorfer, 69),
c(Emanuel, Eder, 43))
)
cat(
paste(\\MyCommand{, mydf[,V1], }{, mydf[,V2], }{,
mydf[,V3], },
sep =, collapse = \n)
, file = tabelle.tex)
HTH,
Tobias
Thank you in advance.
Yours,
Mag. Ferri Leberl
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Re: [R] general linear model and generalized linear model
- Oorspronkelijk bericht - Van: zhijie zhang [mailto:[EMAIL PROTECTED] Verzonden: zaterdag, juli 1, 2006 08:50 AM Aan: r-help@stat.math.ethz.ch Onderwerp: [R] general linear model and generalized linear model Dear friends, I searched the R site and found a lot of results on general linear model and generalized linear model , and i was confused by them. Here, I only want to get some concise answers on the following questions and i'll study it by your hints: 1. Which function(package) could be used to fit the general linear model ? Function lm from the stats package (which comes with R). See ?lm 2. Which function(package) could be used to fit the generalized linear model ? Function glm from the stats package. See ?glm Chapter 11 of `An Introduction to R' (which comes with R and is available on CRAN) is devoted to statistical models in R and has sections on linear models and generalized linear models. Cf. http://cran.r-project.org/manuals.html 3. How to tell them which variables in my dataset are categorical variables that will be used as dummy variables? You should (only) make sure these variables are so-called factors (which is the way R represents categorical variables). Chapter 4 of `An Introduction to R' is entirely devoted to factors. HTH, Tobias Thanks very much! -- Kind Regards, Zhi Jie,Zhang ,PHD Department of Epidemiology School of Public Health Fudan University Tel:86-21-54237149 [[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] Time delay function or plot animation
Ulrike Grömping wrote:
is it possible to specify a time delay for plotting the points in a curve? I
would like to make the plotting process slow enough to show the development
of the graph, and therefore I am looking either for the possibility within
the plot function to specify a plotting speed or (if that doesn't exist) for
a function like pause or wait that allows to specify a time delay until
the next statement is executed. I have searched help and mailing list
archives, but I don't seem to look for the right keywords. My current
solution is very crude:
I add the following to an existing plot:
for (i in 1:steps)
{
lines(x[i:(i+1)], y[i:(i+1)])
#calculations with the sole purpose of generating a time delay
zoeger-1
for (j in 1:85000)
{zoeger-zoeger*j}
}
Is there a better way to achieve this?
See ?Sys.sleep
HTH,
Tobias
Regards, Ulrike
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Re: [R] Maintaining factors when copying from one data frame to another
Kurt Wollenberg wrote: Greetings all: OK, this is bugging the @[EMAIL PROTECTED] out of me. I know the answer is simple and straightforward but for the life of me I cannot find it in the documentation, in the archives, or in my notes (because I know I've encountered this in the past). My problem is: I have a data frame with columns A, B, C, D, and E. A, B, and E are factors and C and D are numeric. I need a new data frame with just A, C, and D. When I copy these columns to a new data frame newDF - data.frame(cbind(oldDF$A, oldDF$C, oldDF$D)) all the factor data comes out as levels rather than the original factors. How do I preserve the factors when I copy from one data frame to another? The following may be better: newDF - subset(oldDF, select = c(A, C, D)) HTH, Tobias __ 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] Element-by-element multiplication operator?
Gates, Michael BGI SF wrote: Is there an element-by-element multiplication in R, like the .* operator in Matlab? eg: A (2x3) B (2x3) C=A.*B C (2x3) C = [[a11*b11 a12*b12 a13*b13]; [a21*b21 a22*b22 a23*b23]] I can't find one... mym - matrix(1:4,2) myt - matrix(5:8,2) mym [,1] [,2] [1,]13 [2,]24 myt [,1] [,2] [1,]57 [2,]68 mym * myt [,1] [,2] [1,]5 21 [2,] 12 32 HTH, Tobias __ 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] getting last 2 charcters of a string, other text functions?
t c wrote:
I wish to obtain the right-most n characters of a character string? What is
the appropriate function?
You could make one yourself:
rightmostn - function(x, n){
res - substr(x, nchar(x)-n+1, nchar(x))
return(res)
}
magic - hocuspocus
rightmostn(magic, 5)
[1] pocus
HTH,
Tobias
-
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Re: [R] R and Data Storage
[EMAIL PROTECTED] wrote: Where I work a lot of people end up using Excel spreadsheets for storing data. This has limitations and maybe some less than obvious problems. I'd like to recommend a uniform way for storing and archiving data collected in the department. Most of the data could be stored in simple csv type files but it would be nice to have something that stores more information about the variables and units. netcdf seems like overkill (and not easy for casual users). Same for postgres and mysql databases. Could someone recommend some system for storing relatively small data sets (50-100 variables, 1000 records) that would be reliable, safe, and easy for people to view and edit their data that works nicely with R and is open source? Am I asking for the moon? Would the StatDataML format meet your needs ? It is open, XML-based, stores variable types and works nicely with R (as R wizards designed StatDataML and the corresponding R package). See http://cran.r-project.org/src/contrib/Descriptions/StatDataML.html or http://www.omegahat.org/StatDataML/ HTH, Tobias __ 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 merge two strings
Claus Hindsgaul wrote: Hi r-help, A very simple question for which I have not been able to find an answer in the docs: How can I merge two character strings? I am searching for the equivalent of the (non-existing) stringmerge function illustrated below: s1 - R- s2 - project stringmerge(s1,s2) [1] R-project Claus paste(s1, s2, sep = ) HTH, Tobias __ 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 material about Longitudinal Data Analysis with R?
On Wed, 01 Jun 2005 00:04:22 +0800 ronggui [EMAIL PROTECTED] wrote: i am studying Longitudinal Data Analysis and want to carry it with R.anyone knows any materials about Longitudinal Data Analysis with R in the internet which i can download? You may have a look at http://www.ats.ucla.edu/stat/examples/alda.htm or http://research.bus.wisc.edu/jfrees/Book/PDataBook.htm HTH, Tobias thank you. __ 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] Books on survival analysis and R/S
- Oorspronkelijk bericht - Van : Göran Broström [mailto:[EMAIL PROTECTED] Verzonden : donderdag , maart 24, 2005 10:40 AM Aan : r-help@stat.math.ethz.ch Onderwerp : [R] Books on survival analysis and R/S I will be giving a course in survival analysis using R (of course!) for people who know nothing about the subject (including R), but know basic statistics. I'm looking for a suitable course book. Therneau Grambsch (2000) is an excellent book, but too much for this course. I need somthing more elementary. I have a vague memory saying that such books exist, but I cannot find any for the moment. Any suggestions are welcome. Tableman, Kim Portnoy, Survival Analysis using S, Chapman Hall, 2003 Here's a review: http://www.jstatsoft.org/v11/b05/v11b05.pdf HTH, Tobias Thanks, Göran -- Göran Broströmtel: +46 90 786 5223 Department of Statistics fax: +46 90 786 6614 Umeå University http://www.stat.umu.se/egna/gb/ SE-90187 Umeå, Sweden e-mail: [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 __ 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 get standard deviation of rows in a matrix
On Wed, 9 Mar 2005 13:49:44 -0600 Jagarlamudi, Choudary [EMAIL PROTECTED] wrote: Hi all, I am trying to find sd of my rows in a matrix and i get column sd inspite of extracting rows. I tried to do the sqrt(var(x)) but that did'nt work as well, Here is my data genes 15 24 63 40 25 42 46 35 23 53 37 45 30 37 50 55 40 51 30 48 x-sd(genes[1:5,]) y-sqrt(var(genes[1:5,])) I get 4 sds for the 4 columns instead of 5 sds for my 5 rows. Thanks you in advance. mymat - matrix(rnorm(20), 5) mymat [,1] [,2] [,3] [,4] [1,] -0.1418666 -0.6754704 -0.2525154 -1.4832003 [2,] -0.2254920 1.8705093 -0.9678318 -0.1108883 [3,] 2.2501392 0.1687349 -0.1279790 0.7055311 [4,] 0.9893453 -0.5924199 0.2410576 0.9001638 [5,] -0.4179559 0.9334556 -0.6501605 0.6148958 apply(mymat, 1, sd) [1] 0.6084171 1.2135998 1.0584750 0.7318231 0.7722641 See ?apply HTH, Tobias __ 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] GLM function with poisson distribution
On Tue, 25 Jan 2005 16:03:57 +0100 Göran Broström [EMAIL PROTECTED] wrote: On Tue, Jan 25, 2005 at 06:22:26AM -0800, Florian Menzel wrote: Hello all, I found a weird result of the GLM function that seems to be a bug. The code: a=c(rep(1,8),rep(2,8)) b=c(rep(0,8),rep(3,8)) cbind(a,b) model=glm(b~a, family=poisson) summary(model) generates a dataset with two groups. One group consists entirely of zeros, the other of 3?s (as happened in a dataset I?m analyzing right now). Since they are count data, one should apply a poisson distribution. A GLM with poisson distribution delivers a p value 0.99, thus, completely fails to detect the difference between the two groups. Why not and what should I do to avoid this error? A quasipoisson distribution detects the difference but I?m not sure whether it?s appropriate to use it. Thanks a lot to everybody who answers! This seems to be a good example of the Hauk-Donner effect; the likelihood ratio test gives a p-value of 8.017e-09, while the Wald p-value is 1 ! For the record: Hauck [sic], W.W. and A. Donner, Wald's test as applied to hypotheses in logit analysis, JASA, 72(1977), p. 851-853. Tobias -- Göran Broströmtel: +46 90 786 5223 Department of Statistics fax: +46 90 786 6614 Umeå University http://www.stat.umu.se/egna/gb/ SE-90187 Umeå, Sweden e-mail: [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 __ 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] Newbie question regarding graphing of Princomp object
On Sat, 15 Jan 2005 05:39:00 +0100 List account [EMAIL PROTECTED] wrote: Greetings, I am working on a stylometric analysis of some latin texts; one of the latest stylometric techniques involves using principal components analysis. Not being a statistician, I can't really fully rely on PCA as my primary tool, since I don't really understand the statistics behind the PCA technique. Nevertheless, the ability to use PCA and graph the results has been marvelously helpful as a preliminary technique to determine what kinds of stylometric variables are worth pursuing as indicators of authorship. For instance, I'm doing the following... I have a set of data for approximately 120 different latin works, about half of which are by St. Thomas Aquinas, and the other half are by various other authors in the Thomistic tradition, some known and some anonymous. My data for frequencies of prepositions looks like the following: A,AD,CIRCA,CUM,DE, (total of 10 variables) 1,0.00967667222531036,0.0208124884194923,0.00142671854734112,0.004863813 22957198,0.00758291643505651 ... 2,0.00874917700292081,0.0217315416668508,0.00133005165549453,0.004379007 27772451,0.00537323193714733 3,0.0064258378627327,0.0280901956627422,0.00178739176045295,0.0043058230 9573329,0.00821688482105979 4,0.00706850368364528,0.027446604903448,0.000821141574836712,0.004617615 47172807,0.00812783899774761 5,0.010214039424891,0.015409971157808,0.000745993537614122,0.00584650749 246416,0.00475787738815518 6,0.00952534711010655,0.0180981595092025,0.00125928317726832,0.005150145 30190507,0.00447206974491443 ... (and so on for the rest of the 120 works) The works are numbered such that works 100 and below are by St. Thomas, those from 101 to 117 are of dubious authenticity, and those from 118 to 179 are by other authors. When I perform a biplot, on the results of the princomp() function, I get a nice graph that plots the 120 works on the two principal component axes (I've figured out how to get rid of the red arrows already). Given that the data points tend to jumble together, I'd like some way to color the different categories of works in the biplot, so that data points for works 1-100 are red, those from 101-117 are blue, and those from 118 to 179 are green (for instance). You can use the `col' argument in the biplot call. In this case, I would do something like biplot(mydata, col = c(rep(red, 100), rep(blue, 17), rep(green, 62))) For a list of built-in color names, you can type colors() at the R prompt. For more information on biplot, type ?biplot VaRiis modis bene fit. HTH, Tobias I've included a sample of the output that I'm currently getting, in case it's helpful to anybody. BTW, I am running RAqua (for the Mac), version 1.8.1. Thanks in advance for any help! -Erik Norvelle erik (at) norvelle (dot) org Facultad de Filosofía y Letras Universidad de Navarra Pamplona, Navarra, España __ 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] graphing of Princomp object
On Sat, 15 Jan 2005 15:53:18 +0100 List account [EMAIL PROTECTED] wrote: Thanks, Tobias for the response. I tried the suggestion you gave, and apparently (at least according to the biplot manpage, only the first two members of the col vector are used, the first to plot the first set of values, i.e. the scores, and the second color is used for the loadings (I think I have that right). At any rate, if I add the clause 'col = c(rep(red, 100), rep(blue, 17), rep(green, 62))' I just get a bunch of red points! :( You're right. I'm sorry I did not read ?biplot, but only checked it had a col argument (Semel in anno licet insanire..). Anyway, with PCA it is not a good idea to plot both variables and cases on one single plot, because the temptation is too great to interpret proximities between variables and cases. You'd better plot two different graphs, one for the cases and one for the `circle of correlations'. For plotting the cases, you could make up your own plot using something similar to this: library(MASS) # for eqscplot F1 - yourpca$score[,1] F2 - yourpca$score[,2] eqscplot(F1, F2, pch = 20) text(F1, F2, labels = names(F1), col = c(rep(red, 100), rep(blue, 17), rep(green, 62)), pos = 3) Tobias Si vales, valeo... -Erik __ 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] Breslow Day Test
On Tue, 11 Jan 2005 10:45:48 -0500 Palos, Judit [EMAIL PROTECTED] wrote: Breslow-Day test A statistical test for the homogeneity of odds ratios. [..some definitions..] Your message was not particularly clear, but if you were looking for R code to do a Breslow-Day test, Google found this for you: http://www.math.montana.edu/~jimrc/classes/stat524/Rcode/breslowday.test.r HTH, Tobias 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] Re:Chi-square distance
- Oorspronkelijk bericht - Van: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] Verzonden: dinsdag, januari 11, 2005 12:10 PM I'm Ph.D student and I need an R code to compute the chi square diistance between n profile rows in a matrix. There is a ready-made function dudi.dist in package ade4. This function needs an object of class dudi, so (in your case) you need to do a correspondence analysis on your matrix. This will define the metrics on the row and column spaces the way you want. The function dudi.coa only accepts data frames as its first argument. install.packages(ade4) library(ade4) mydf - as.data.frame(mymat) mydf.coa - dudi.coa(mydf, scannf = FALSE, nf = 2) dudi.dist(mydf.coa, amongrow = TRUE) should give you the chi square distances between row profiles. HTH, Tobias could you help me please? Thanks Paola Libero ADSL: 3 mesi gratis e navighi a 1.2 Mega. E poi hai l'Adsl senza limiti a meno di 1 euro al giorno. Abbonati subito senza costi di attivazione su http://www.libero.it __ 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] Asymmetry and kurtosis coefficients
On Fri, 07 Jan 2005 12:28:04 + Talita Leite [EMAIL PROTECTED] wrote: Hello everybody, I'm studying descriptive statistics with R and I want to know how to calculate the asymmetry and kurtosis coefficients of a sample using R. I'll appreciate some help. install.packages(e1071) library(e1071) ?kurtosis ?skewness HTH, Tobias Thanx, Talita Perciano Costa Leite Graduanda em Ciência da Computação Universidade Federal de Alagoas - UFAL Departamento de Tecnologia da Informação - TCI Construção de Conhecimento por Agrupamento de Dados - CoCADa __ 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] list(0) to integer
On Mon, 27 Dec 2004 03:18:53 -0800 (PST)
Frederic renaud [EMAIL PROTECTED] wrote:
Hello
I've another question :-)
I would like to transform a list to a integer.
I must be sure that the number entered by the user is
an integer! Thus, I've made :
repeat{
cat(Effectif des populations (integer):)
n-scan(,n=1,what=list(0),quiet=TRUE)
if (is.integer(n[[1]])==TRUE) break
print(L'effectif des population doit etre un
entier)
}
if (!is.integer(unlist(n))) stop(L'effectif ...)
You don't need `== TRUE' (and I guess you meant `== FALSE')
An error action can be executed using stop(some error message).
`break' breaks out of the loop (ie goes to the first statement
after the loop), so the print statement cannot be executed.
Are you sure you need n to be a list ?
HTH,
Tobias
That doesn't work of course but I've no idea to do
this. How verify that n[[1]] is an integer an
transform them as an integer (as.integer(n) doesn't
work!)
Someone can help me? Thanks!
Fred
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Re: [R] Un peu d'aide
On Sun, 26 Dec 2004 04:11:20 -0800 (PST) Frederic renaud [EMAIL PROTECTED] wrote: Bonjour, Je voudrais faire un petit programme sous R dans lequel je ferais intervenir des parametres que j'initialiserais dans R directement ou dans un fichier txt(des naturels, reels et caracteres). N'auriez vous pas des programmes deja fait qui reprennent ces techniques? Salut, La liste R-help est anglophone. En bas de ce message figure l'URL du posting guide, qui pourrait te guider vers la documentation (qui est fort riche). Il n'y a aucun problème à lire des données depuis un fichier. Voir la fonction read.table ou scan Il y a un manuel spécifique pour l'importation et l'exportation des données (qui se trouve très probablement sur ton système, mais que tu peux télécharger également depuis CRAN). De plus, je voudrais pouvoir travailler avec la distribution exp (rexp) de parametres: moyenne=1 et variance=1. J'ai un petit prob pour introduire la variance. Je crois qu'il n'y qu'un seul paramètre pour cette distribution (scale parameter b 0). La moyenne est b, la variance est b^2. Le paramètre utilisé en R est le dit 'hazard rate' lambda = 1/b. Pour une moyenne = 1 et variance = 1 il suffit d'introduire l'argument rate = 1. HTH, Tobias D'avance Merci Fred __ 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] Excel *.xls files, RODBC
On Sat, 4 Dec 2004 14:32:24 -0400 (AST) Rolf Turner [EMAIL PROTECTED] wrote: Chuck Cleland wrote: The following works for me under WinXP Pro to create myframe as a data frame: library(RODBC) z - odbcConnectExcel(c:/myfolder/mydata.xls) myframe - sqlFetch(z, Sheet1) close(z) I tried that and got the error message: Error: couldn't find function odbcConnectExcel Are you indicating the name of the worksheet you want within the *.xls file? I suspect there could be additional issues on a non-Windows OS that I don't know about. On which Brian Ripley commented: Most notably the absence of an Excel ODBC driver. I guess that's the problem. In my initial message I forgot to indicate that I am working on a Linux box. Sorry; mea culpa. It would appear then, that there is NO WAY to read Excel files into R save by transporting them to a Windoze system, saving them as .csv files and then transporting these back reading them into R. A bit unsatisfactory, but it ***is*** a workaround. library(gdata) ?read.xls HTH, Tobias __ [EMAIL PROTECTED] 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] Text Mining with R
On Thu, 2 Dec 2004 18:29:31 +0100 Daniele Medri [EMAIL PROTECTED] wrote: Dears, anyone has experiences with text mining and R? I'll be very greatfull for tutorial or examples. You may have a look at: http://wwwpeople.unil.ch/jean-pierre.mueller/ HTH, Tobias -- Daniele Medri - http://www.medri.org __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] debugging functions within Emacs/ESS/R
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Re: [R] debugging functions within Emacs/ESS/R
I'm sorry. My message just pointed to the document by Roger Peng: http://www.biostat.jhsph.edu/~rpeng/docs/R-debug-tools.pdf HTH, T. __ [EMAIL PROTECTED] 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] (no subject)
On Mon, 09 Aug 2004 08:01:55 -0300 Paolo Tommasini [EMAIL PROTECTED] wrote: Hi ! mu name is Paolo and I teach statistic in a small college in Brazil and we use Linux. We started to use R as our statitical software. I,ve been trying to use some commands I see in the documentation online but i doesn not work. Commands like simple.hist.and.boxplot and others related with graphing. Do I need a special ppackage ? how do I load it ? This function is probably a function of the package Simple that accompanies the user-contributed introduction to R simpleR http://www.math.csi.cuny.edu/Statistics/R/simpleR/index.html Download the tarball on this webpage http://www.math.csi.cuny.edu/Statistics/R/simpleR/Simple_0.4.tar.gz and install it (as root) as follows: # R CMD INSTALL Simple_0.4.tar.gz Then (as a normal user) you can load the package (from within R using the library() command) library(Simple) to see an example of this simple.hist.and.boxplot() function do example(simple.hist.and.boxplot) to see the help for it, use ?simple.hist.and.boxplot For graphics commands you do not need to use contributed packages. On a standard R installation, a lot is already available. See ?hist, ?boxplot, ?plot etc. or the Graphics section of the R manual An Introduction to R. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[OT] Re: [R] Transparent backgrounds in png files
[EMAIL PROTECTED] wrote on 30/07/2004 05:34:32: snip Are the Windows recipients of the R graphics involved in creating/editing the resultant documents, or do they simply require read only access of a final document? If the latter, then let me suggest that you generate EPS based graphics in R (for which you can specify height and width arguments in inches as required). Import those EPS graphics into OO.org's Impress (PP-alike) or Writer (Word-alike). Then print the file to a PS file and then use ps2pdf to create a PDF version of the document that the recipients can view in Acrobat Reader. A more direct way than printing to .ps and converting with ps2pdf could be to use the extendedPDF macros for OOo (http://www.jdisoftware.co.uk/pages/epdf-home.php) which basically does the same but can sit there as a button on your taskbar. Moreover, extendedPDF allows to use `real' PDF hyperlinks and PDF bookmarks. Unfortunately (as Marc Schwarz told me), extendedPDF may not work on all Linux distro's (e.g. not on FC2 as FC people work towards integrating OOo printing with CUPS and do not ship an OOo print admin program anymore). Best regards, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Complex Surveys...Specifying Design
On Fri, 23 Jul 2004 12:23:35 -0400 Zodet, Marc [EMAIL PROTECTED] wrote: I need some guidance from someone who is familiar/has some experience with the survey package. The data that I am using is from the Medical Expenditure Panel Survey (www.meps.ahrq.gov http://www.meps.ahrq.gov/ ). The STRATA and PSU variables are varstr01 and varpsu01 respectively. When I try to specify them with the svydesign function I get an error message. An excerpt of my session is as follows... library(foreign) h60 - read.xport(h:\\meps\\temptransports\\h60.tpt) names(h60) - casefold(names(h60)) names(h60) [1] dupersid sex inscov01 totexp01 perwt01f varstr01 varpsu01 library(survey) meps.design - svydesign(id=~varpsu01, strata=~varstr01, weight=~perwt01f, data=h60) Error in svydesign(id = ~varpsu01, strata = ~varstr01, weight = ~perwt01f, : Clusters not nested in strata I'm not sure what is causing this error message or how to get around it (i.e., remedy the problem). Any insight would be much appreciated. Hi, I guess the most common way of proceeding is to first stratify, and then to sample clusters independently within each stratum. If this is the case, your data file can be put together like stratum psu ... 1 1 1 2 1 3 2 1 2 2 2 3 or like stratum psu ... 1 1 1 2 1 3 2 4 2 5 2 6 svydesign only likes the first data structure so if this is not the case (clusters not 'nested' in your strata) you should tell svydesign to nest (relabel) the clusters for you by passing the argument nest = TRUE to svydesign. In other words: meps.design - svydesign(ids = ~varpsu01, strata = ~varstr01, weights = ~perwt01f, nest = TRUE, data = h60) should work. See ?svydesign. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] formatting
[EMAIL PROTECTED] wrote on 30/06/2004 16:05:15: I could not figure this out from the documentation: is there a way to send formatted non-graphical data to a fancy output device (eg, latex, pdf...) For example, if I want to include the summary of a linear model in a document, I might want to have it automatically texified. Have a look at the latex() function in package Hmisc, and/or at package xtable If you want to use R code in a LaTeX document, you can use Sweave; see http://www.ci.tuwien.ac.at/~leisch/Sweave/ HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] How to order a vector
[EMAIL PROTECTED] wrote on 17/06/2004 13:10:35: Hi all I have a vector like this 2003 2002 2001 2000 1999 1998 1997 1996 106 105 106 106105 106 101 107 How can I get it sorted right(19962003)? rev(1:4) [1] 4 3 2 1 HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Sweave and multiple graphs
[EMAIL PROTECTED] wrote on 11/06/2004 14:07:18:
Dear list,
I am using Sweave to build a small report. I want to produce a series of
figures, each figure containing a number of plots and then have them
included in the Sweave file.
An example would be to :
postscript(file = ANCbwplot%03d.eps, onefile = FALSE, other options...)
oldpar - par(mfrow = c(2,2))
do lots of plots to produce a number of eps files
par(oldpar)
dev.off()
The example in the Sweave FAQ shows how to do something similar for
cases where you know how many figures there are, but I do not know how
many figures will be produced so want to produce a more generic solution.
I thought of doing the above code in Sweave, and because I named the
plots in a unique way, I now want to read all the files in the current
directory that match ANCbwplot001.eps or ANCbwplot002.eps or
ANCbwplot003.eps an so on. If I have this as a vector in R, then I can
loop over this vector and do something like:
results=tex,echo=FALSE=
file.vec - all files in directory that match name
for(i in seq(along=file.vec))
{
cat(\\includegraphics{, file.vec[i], }\n\n, sep)
}
@
in Sweave.
I'm not sure about getting a list of file names from the current working
directory that match a given string that I can then loop over and print
out using cat as shown above. If anyone has any suggestions as to how to
go about doing this that they are willing to share I would be most
grateful.
Thanks in advance,
[EMAIL PROTECTED] wrote on 11/06/2004 14:07:18:
Dear list,
[ generation of lots of graphics files to include in
Sweave document]
I'm not sure about getting a list of file names from the current working
directory that match a given string that I can then loop over and print
out using cat as shown above. If anyone has any suggestions as to how to
go about doing this that they are willing to share I would be most
grateful.
Thanks in advance,
Use list.files(). It has a path argument (to specify the directory)
and a pattern argument to put the regular expression.
mygraphs - list.files(path=./mygraphs, pattern=^ANCbwplot.*\\.eps)
See ?list.files and maybe ?regex
HTH,
Tobias
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Re: [R] methods for complex sample surveys
[EMAIL PROTECTED] wrote on 02/06/2004 15:21:14: I have learned a lot from this list. I would like to thank the developers and contributors who devote so much of their time to this project. Does anyone know if any methods have been developed for handling data from complex sample surveys that include sample weights, clusters, strata, and so on? I know that SUDAAN, Stata have some abilities. Does anything exist in R/S? There is a survey package on CRAN, by Thomas Lumley. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.spss
On Tue, 01 Jun 2004 18:37:53 +0200 samirkc [EMAIL PROTECTED] wrote: HI, I tried to read an spss file, i got this message, please help me out. I am a very new user. Please suggest. Samir Error in read.spss(coughfever.sav) : Error reading system-file header. In addition: Warning message: coughfever.sav: File layout code has unexpected value 50331648. Value should be 2, in big-endian or little-endian There has already been a thread regarding a similar warning message. See http://finzi.psych.upenn.edu/R/Rhelp02a/archive/21173.html and the other messages in the thread. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] S/R programming books
On Tue, 01 Jun 2004 14:13:23 +0100 Samuel Kemp (Comp) [EMAIL PROTECTED] wrote: Hi, I have been using R for a few months now and I am confident that the language has everything I will need to complete my PhD. I can create functions, script files and packages, but I would like to write my programs more efficiently (maybe using OO). Can anyone recommend a good book on the art of good R programming? If you have patience (book announced for July 2004) and read German, Programmieren mit R by Uwe Ligges (Springer Verlag, ISBN: 3-540-20727-9) might be an other answer to your needs. See: http://www.springeronline.com/sgw/cda/frontpage/0,10735,5-40109-22-26682866-0,00.html HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Date parsing question
[EMAIL PROTECTED] wrote on 27/05/2004 11:29:11: How do I parse a date mmdd? I tried asking chron(s, ymd) but that didn't work. Would the date parsing routines of the Date class of 1.9 grok this? a - 20030527 as.Date(a, %Y%m%d) [1] 2003-05-27 HTH, Tobias -- Ajay Shah Consultant [EMAIL PROTECTED] Department of Economic Affairs http://www.mayin.org/ajayshah Ministry of Finance, New Delhi __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] searching a vector
[EMAIL PROTECTED] wrote on 30/04/2004 15:33:48: Hi, I have a integer vector x that contains a unique set of numbers: x - c(1,2,4,6,8,10,12) Is there a simple test I can use to determine if an integer such as 6 is contained in x ? x - c(1,2,4,6,8,10,12) 6 %in% x [1] TRUE See ?%in% and its 'See also:' section. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] tutorial for lme
[EMAIL PROTECTED] wrote on 23/04/2004 12:12:31: Hi all, I find an introduction for program lme() for fitting mixed effects models. I do not have the book wirtten by Pinheiro and Bates, and a tutorial would be very useful. In particular, I have some difficulties to understand how specifications for random effects and variance structures could be specified. somebody knows an introduction for that ? http://socserv.mcmaster.ca/jfox/Books/Companion/appendix-mixed-models.pdf This is part of the web appendix to An R and S-PLUS Companion to Applied Regression by John Fox, Sage Publications, 2002. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] Failure to compile source packages in Debian
F. Tusell [EMAIL PROTECTED] wrote on 31/03/2004 10:06:32: [...] and yet libgc2-pic is not resolved. *HOWEVER* following your lead that whatever is needed must by in a library of name libg2c*, I did the following in /usr/lib: ln -s libg2c0.so.0 libg2c-pic.so and everything works like a charm. Seems it si just a library that changed its name. Hmm.. Doing a search on http://www.debian.org/distrib/packages#search_contents using options Keyword g2c-pic packages that contain files or directories, whose names contain the keyword testing Intel x86 points to g77 packages. Probably installing this one is a better solution ? HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] read.spss
[EMAIL PROTECTED] wrote on 04/03/1997 03:21:00: Hi, I would like to read a spss file in R. When i type read.spss(...) Comes the error: couldn't find function read.spss What shall i do? Hi Margarida, Did you load the foreign package by typing library(foreign) before using the read.spss()-command and did you install the foreign package by typing e.g. install.packages(foreign) before loading the foreign package ? HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Betr.: [R] Levels number of a factor object
[EMAIL PROTECTED] wrote on 23/01/2004 15:24:21: Hi all! How to retrieve the levels number of a factor object? See this code: groups-gl(4,10) I want to retrieve the number of levels (4) of my object groups I tried groups.levels but this don't work Is length(levels(groups)) what you were looking for ? HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Betr.: [R] r: fortran help
I would like to know if anybody knows of either a good book or web site that explains one how to use Fortran. I would like to call some of the Fortran subroutines but before I can do that I first want to learn how to code in Fortran. There is a wealth of resources in the fortran faq http://www.faqs.org/faqs/fortran-faq/ (including two freely downloadable f77-books) HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
Re: [R] extensive grid docs?
[EMAIL PROTECTED] wrote on 10/12/2003 22:23:43: I'm looking for extensive docs on using grid (for the somewhat newbie). I'm attempting to create a set of graphics that look similar to the attached image (I hope this doesn't get bounced) and have only come across the R newsletters and it appears that grid was new as of 1.8.0? I think the best way to proceed is to create the plot, clip it using a polygon, then manually add the annotation. Is that correct? I couldn't find much on the FAQ regarding creating really goofy plots with grid and any hints would be greatly appreciated. Here's an R graphics tutorial by Paul Murrell http://www.ci.tuwien.ac.at/Conferences/DSC-2003/tutorials.html HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] weighted correlations and NAs
Dear list, Is there a way to obtain a matrix of weighted correlations in the presence of missing values ? cor() can deal with NAs but cov.wt() apparently can't. Is there any package that offers such a function, e.g. one that uses all complete pairs of observations ? Thanks in advance, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Betr.: [R] Organized examples for newbyes
[EMAIL PROTECTED] wrote on 14/10/2003 09:20:34: I'm learning R from scratch on my linux box, being deeply biased at work by those graphical programs, nice to look but often poor in content and almost generally limited, running under M$ Windows. I wonder if someone out there can suggest to an absolute beginner as I am where to find a collection of examples of R-code (or Splus, as I understand) to play with in order to learn R quicker. The collection should: 1) be in English, or French, or, of course, Italian, 2) be concentrated in one or at most a handful of sites, 3) contain examples of gradually increasing complexity. This site will not respond to all of the conditions, but I learned a lot from it. http://www.ku.edu/~pauljohn/R/Rtips.html Do not forget to explore all of the contributed docs you can find on CRAN (section Documentation, Contributed). HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Newbie
On Thu, 7 Aug 2003 14:41:51 +0100 Marcos Llobera [EMAIL PROTECTED] wrote: I just installed R's RPM on a Linux box using red hat 8.0. I would like to use some graphical interface (e.g. gnome) but I have not managed to do it. type R at the prompt in a gnome terminal and you can use R. There is the GUI Rcmdr (see message of Sir John Fox preceding your message), a package you should install. Install packages car and foreign first, because Rcmdr needs them. (see the R documentation on CRAN on how to install a package) If you installed the packages successfully, type library(Rcmdr) at the R prompt and you will have a GUI. HTH, Tobias PS using the command line increases speed and flexibility IMHO __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] Changing default browser in options()
so I have to type every single R session: options(browser='dillo') Is there anyway I can change this globally? If you put the line options(browser='dillo') in the .Rprofile of your home directory, it will fire up dillo the next time. HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] variable name of variable in dataframe
Dear list,
If I have this toy function:
toy - function(b=.95){
toyframe - data.frame(lion.95 = c(1, 2))
return(toyframe)
}
How can I obtain that for any value b,
the name of the column becomes lionb,
i.e. lion.95 if b = .95, lion.85 if b = .85 etc.
knowing that .95 (.85 etc.) may also be
given as 0.95 (0.85 etc.) but that the
result should be lion.95 (lion.85 etc.)
Thanks in advance,
Tobias
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Re: [R] variable name of variable in dataframe
Sir Hotz, Sir Bengtsson, Sir Ripley and Sir Dalgaard, Thank you __very__ much for your help. Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] I don't find fuzzy matching
I think the datasets you're talking about can be downloaded at http://wwwmaths.anu.edu.au/~johnm/r/dsets/ put these in your working directory and type (in R), e.g. source(dolphins.R) You can see you have the data now by typing: dolphins wt heart logweight logheart species 1 35 245 3.555348 5.501258styx 2 42 255 3.737670 5.541264styx 3 71 525 4.262680 6.263398styx 4 65 425 4.174387 6.052089styx 5 63 425 4.143135 6.052089styx 6 64 440 4.158883 6.086775styx 7 45 350 3.806662 5.857933styx 8 54 300 3.988984 5.703782 delph 9 59 350 4.077537 5.857933 delph 10 50 320 3.912023 5.768321 delph 11 42 240 3.737670 5.480639 delph 12 55 305 4.007333 5.720312 delph 13 37 220 3.610918 5.393628 delph 14 47 310 3.850148 5.736572 delph 15 40 210 3.688879 5.347108 delph 16 52 350 3.951244 5.857933 delph HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] R, geochemistry, ternary diagrams
Are there enough geochemists using R already that he'd find like-minded people to discuss technical issues with if he _did_ switch to R? Is there a package somewhere already that does ternary and other geochemistry diagrams? Another possibility for a ternary plot was mentioned by Prof Ripley in http://maths.newcastle.edu.au/~rking/R/help/02b/3637.html library(MASS) example(Skye) gives code and an example HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] (no subject)
[read text file :] #data1 1 2 3 4 5 6 7 8 Is this what you mean ? b - read.table(filewithyourdata, header=F, sep= ) b V1 V2 V3 V4 1 1 2 3 4 2 5 6 7 8 HTH, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] (no subject)
Sorry Michael, I should read more carefully. You asked to create the file, not to read it. Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
Re: [R] for loop problem
Sir Dalgaard, Thank you for your kind reply. In what way am I ill-treating R ? You're ill-treating the readers by not giving a full example of a call to the function... ax.to.nax.for(qx, ax) However: in the for loop, i will be one of 0,1,5,10 and n is the vector c(1,4,5,5) so n[i+1] is indexing out of bounds and e.g. n[6] [1] NA and the : operator subsequently objects. Did you mean (i+1):(i+n[j]+1) or so? Yes! I meant (i+1):(i+n[j]) Thanks again, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] `acting' on variables
Dear list,
How can one from within a function act
on these variables (outside a function)
that were given as arguments.
If I have e.g. this beginning of a function:
foo - function(tiro){
app.tiro - 3 * tiro
[...]
}
How can I from within the curly brackets
e.g. concatenate the app.tiro to
the particular variable I passed as the
argument `tiro' ?
What is the technical name of this phenomenon ?
Thank you in advance,
Tobias
PS forgive my non-programmer lingo
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Re: [R] `acting' on variables
Thanks to all of you for your answers,
The situation I was dangerously trying
to cope with was an incomplete life table,
with incomplete ages and incomplete survivors.
This is the table I want to complete using
a Gompertz function to estimate mortality
at high ages:
agelx
1 75 53803
2 80 37441
3 85 21134
This is the function I wrote
(I warn you, this is not meant
for programmer's eyes):
gompertz.estimates - function(age, surv){
n - age[length(age)] - age[length(age) - 1]
ly2n - surv[length(surv)]
lyn - surv[length(surv) - 1]
ly - surv[length(surv) - 2]
y - age[length(age) - 2]
lastage - age[length(age)]
# list(n =n, ly2n = ly2n, lyn = lyn,
# ly = ly, y = y, lastage = lastage) OK
b - (log(ly2n / lyn) / log(lyn / ly)) ** (1 / n)
a - exp(log(lyn / ly) / ((b ** y) * (b ** n - 1)))
C - ly * exp(-(b ** y) * log(a))
equation - function(d) C * (a ** (b ** d))
# return(equation(c(90,95,100,105,110))) OK
ageseq - seq(lastage + n, lastage + (20 * n), by=n)
l.est - equation(ageseq[1])
newl.est - 1
i - 1
while(newl.est = 0.5){
newl.est - equation(ageseq[i])
l.est - c(l.est, newl.est)
i - i + 1
}
app.age - ageseq[1:length(l.est)]
list(app.age = app.age, l.est = round(l.est, digits=0))
}
The components in the list are the things I
would like to add to the columns in my incomplete
life table.
If this is too dangerous (quaint etc.),
I will not do it that way.
If you can recommend me more elegant ways
to do what I wanted, I will be grateful and
promise never ever to post this kind of
functions on this list ;-)
Regards,
Tobias
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Re: [R] `acting' on variables
Favete linguis... Thanks, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
[R] dynamics of functions
Dear list,
I would like to study the dynamics of
functions using R (instead of mathematica e.g.),
i.e. the behavior of points under iteration
of a function.
So I tried (in vain) writing a function
myfunction - function(f,n,x){...}
in order to compute f^{n}(x), f^{n}(x) being
the function f composed with itself n-1 times.
n is a natural number, and the argument x is
the abscissa of the point I would like to
`follow'.
Can someone give me a boost?
I appreciate your help,
Tobias Verbeke
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[R] dynamics of functions
Dear list,
I would like to study the dynamics of
functions using R (instead of mathematica e.g.),
i.e. the behavior of points under iteration
of a function.
So I tried (in vain) writing a function
myfunction - function(f,n,x){...}
in order to compute f^{n}(x), f^{n}(x) being
the function f composed with itself n-1 times.
n is a natural number, and the argument x is
the abscissa of the point I would like to
`follow'.
Can someone give me a boost?
I appreciate your help,
Tobias Verbeke
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Re: [R] dynamics of functions
Dear Thomas,
What about the following function?
iterate-function(f,n,x){
if(n==0) return(x)
y-x
for(i in 1:n)y-f(y)
y
}
iterate(sqrt,3,256)
Thank you very much, this certainly helps.
I'm still curious, though, to know how to
write the expression of my function
immediately as the argument f.
I can define it outside of the function
aap - function(x) -x^3
and use it as argument
iterate(aap,3,256),
but I seem not to be clever enough
to write a function that receives
the following as input
iterate(-x^3,3,256)
Thanks again,
Tobias
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Re: [R] dynamics of functions
Thanks to you all for the clarifications. I will work on my spacebar usage ;-) Regards, Tobias __ [EMAIL PROTECTED] mailing list https://www.stat.math.ethz.ch/mailman/listinfo/r-help
