Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Jeff Newmiller
Ah, sorry... I became confused by the mixture of top and bottom posting combined with a leading pronoun. I will be on the lookout for that combination now. --- Jeff Newmiller The . . Go Live... DCN: Basics: ##.#. ##.#

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Spencer Graves
Please excuse my failure to provide a proper reference. I refered only to providing pro forma documentation files that contained neither documentation nor examples, unit tests etc. I thought my comment was consistent with your comment that, "I only mention this possibility for the sak

Re: [R] Downloading S&P monthly data into R

2011-02-11 Thread Pete Brecknock
1. Using the quantmod package. Look at ?getSymbols e.g. getSymbols("^GSPC",src="yahoo") then use the to.monthly function 2. Using the tseries package . Look at ?get.hist.quote e.g. get.hist.quote(instrument = "^GSPC", start = as.yearmon("Jan 1950") ,compression = "m", quote = "Clos

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Jeff Newmiller
I may be missing something here, but what does preferring roxygen over Rd files have to do with Fortran, spaghetti code, test suites, or functionality? Do you even know what roxygen is? --- Jeff Newmiller The . . Go L

Re: [R] Predictions with missing inputs

2011-02-11 Thread Bill.Venables
With R it is always possible to shoot yourself squarely in the foot, as you seem keen to do, but R does at least often make it difficult. When you predict, you need to have values for ALL variables used in the model. Just leaving out the coefficients corresponding to absent predictors is equiv

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Spencer Graves
That's a procedure for those who want to write Fortran in R, who love debugging spaghetti and refuse to be bothered with silly things like test suites and any firm notion of functionality. Spencer On 2/11/2011 7:06 PM, David Scott wrote: On 12/02/2011 1:27 p.m., Yihui Xie wrote: I guess Ema

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread David Scott
On 12/02/2011 1:27 p.m., Yihui Xie wrote: I guess Emacs + ESS + roxygen might be the easiest way to write an R package. Writing or modifying Rd files/templates, in my eyes, is really time-consuming and the Rd files are difficult to maintain (unless you really have a good memory). I became relucta

Re: [R] How do I add a book title to the R bibliography?

2011-02-11 Thread Ben Bolker
Paul Teetor yahoo.com> writes: > I would like to add a new title to the bibliography on the R website > (http://www.r-project.org/doc/bib/R-books.html), but I cannot find > instructions for doing that. > > Can anyone tell me, whom should I contact in order to add a new book? > > (I added the ti

Re: [R] Fwd: About classification methods.

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 9:07 PM, Jaeik Cho wrote: Yes, this point i can understand your suggestion and I should read "HOW TO ASK GOOD QUESTIONS". I'm a just new mailing list, also a R user for researching on graduate school. Any person can make mistake, also it can be effect to other people,

[R] Predictions with missing inputs

2011-02-11 Thread Axel Urbiz
Dear users, I'll appreciate your help with this (hopefully) simple problem. I have a model object which was fitted to inputs X1, X2, X3. Now, I'd like to use this object to make predictions on a new data set where only X1 and X2 are available (just use the estimated coefficients for these variabl

[R] DiagnosisMed package corrupt?

2011-02-11 Thread Daryl Morris
Hi, I was borrowing someone's code today, and they were using the package DiagnosisMed. I downloaded the package using the built-in package installer in the GUI (R 2.12.1 running on Mac OS 10.6.5). The package manager lists the following information: ‘DiagnosisMed’ version 0.2.3 Every time I

Re: [R] Where can I download/install grDevices

2011-02-11 Thread Lizblip
djmuseR wrote: > > > Here's one way: > > plot(1~1,ylab=expression("Areas ("~mu*m^2~")")) > > The tildes incorporate space between the math and text elements; they're > optional, but useful. > > This worked, thanks! Elizabeth -- View this message in context: http://r.789695.n4.nabble.

Re: [R] add mean and sd to dotplot in each panel using lattice

2011-02-11 Thread Xiaokuan Wei
Hi Phil, This is exactly what I want, I just changed some trivial settings to make it plot standard error of the mean and color changing with panels. Thank you very much. -Xiaokuan library(lattice) mypanel = function(x,y,...){ agg<-aggregate(y,list(x),function(x)c(mean(x,na.rm=TRUE),sd(x,

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Yihui Xie
I guess Emacs + ESS + roxygen might be the easiest way to write an R package. Writing or modifying Rd files/templates, in my eyes, is really time-consuming and the Rd files are difficult to maintain (unless you really have a good memory). I became reluctant to maintain my R packages simply because

Re: [R] How to compute "yaxp" and "usr" without plotting ?

2011-02-11 Thread Greg Snow
The usr parameter is either ylim or ylim plus 4 percent on either side (see yaxs/xaxs), see the pretty function for possible ways to get the yaxp information. Note that strwidth is based on the current coordinate system and will not give you the proper values unless the plot region has already

Re: [R] Time Series in R with ggplot2

2011-02-11 Thread Ista Zahn
Hi, You probably have Year stored as a factor. See below. totsoc <- structure(list(Location = structure(c(1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L, 1L), .Label = "SOUTH", class = "factor"), Year = 1998:2007, Value = c(29L, 20L, 32L, 29L, 25L, 28L, 27L, 28L, 22L, 31L )), .Names = c("Location", "Y

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Michael Friendly
On 2/11/2011 2:52 AM, Dr. Michael Wolf wrote: Dear R colleagues, ... From the point of the costs e. g. I had to learn writing help files in a TeX-like language. But I'm the typical Word user. My last TeX writings were done in the 1990s! If I'm changing only a letter in a source file (r-file o

[R] How do I add a book title to the R bibliography?

2011-02-11 Thread Paul Teetor
R community: I would like to add a new title to the bibliography on the R website (http://www.r-project.org/doc/bib/R-books.html), but I cannot find instructions for doing that. Can anyone tell me, whom should I contact in order to add a new book? (I added the title to the wiki's list of books,

Re: [R] lattice auto.key gives mismatch colors

2011-02-11 Thread Dennis Murphy
Hi: This seems to work: mykey <- list(space = 'top', columns = 4, text = list(as.character(unique(src$s)), col = colors), points = list(pch = 1, col = colors) ) xyplot(v~t, groups=s, type='o', data=src, col=colors, key = mykey) HTH, Dennis

Re: [R] Fwd: About classification methods.

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 4:11 PM, Jaeik Cho wrote: I mean, after done for the testing step, I want show which data classified to wrong class. That predictions. At this point my suggestion is that your (re?)-read the Posting Guide and determine whether you have adhered to the level of detail an

[R] Time Series in R with ggplot2

2011-02-11 Thread info
Hi Folks, First, the important information. > sessionInfo() R version 2.12.1 (2010-12-16) Platform: i386-pc-mingw32/i386 (32-bit) Second, my problem. I have a series of data sets comprised in the following format. > totsoc Location Year Value 1 SOUTH 199829 2 SOUTH 199920

[R] [R-pkgs] Update: googleVis 0.2.4 - Using the Google Visualisation API with R

2011-02-11 Thread Markus Gesmann
Hi all, Version 0.2.4 of the googVis package has been released on CRAN and will be available from your local CRAN mirror soon. googleVis provides an interface between R and the Google Visualisation API. The functions of the package allow users to visualise data stored in R with the Google Vis

Re: [R] R for mac, default load package.

2011-02-11 Thread Steve Lianoglou
Hi, On Fri, Feb 11, 2011 at 3:21 PM, Jaeik Cho wrote: > Dear R users, > > > I'm looking for solution about how can I add a package to default load > package list. > > Because, some packages, every time I use the package for analysis. I don't > want type "load(package)" every time. > > On the R

Re: [R] Rioja package, creating transfer function, WA, "Error in FUN"

2011-02-11 Thread mdc
Dear Peter, Thank you very much for your suggestion, I went through the matrices and removed the headings for pH, WTD etc and did the same for the site names, which I made purely numerical, and now the WA function is working, Thanks again! Matthew On Fri, Feb 11, 2011 at 12:44 AM, Peter Ehlers [v

[R] Summarizing a response variable based on an irregular time period

2011-02-11 Thread Sam Albers
Hello, I have a question about working with dates in R. I would like to summarize a response variable based on a designated and irregular time period. The purpose of this is to compare the summarized values (which were sampled daily) to another variable that was sampled less frequently. Below is a

[R] R for mac, default load package.

2011-02-11 Thread Jaeik Cho
Dear R users, I'm looking for solution about how can I add a package to default load package list. Because, some packages, every time I use the package for analysis. I don't want type "load(package)" every time. On the R instruction, I should change .Rprofile file, but I couldn't find R for

[R] Fwd: About classification methods.

2011-02-11 Thread Jaeik Cho
I mean, after done for the testing step, I want show which data classified to wrong class. That predictions. Jaeik Begin forwarded message: > From: Bert Gunter > Date: February 11, 2011 3:00:47 PM CST > To: David Winsemius > Cc: Jaeik Cho , r-help@r-project.org > Subject: Re: [R] About class

[R] [R-pkgs] ez version 3.0

2011-02-11 Thread Mike Lawrence
Hi folks, I'd like to announce the release of version 3.0 of the "ez" package. This package was developed to aid those that are new to statistical programming. Over the course of several years of helping colleagues and students learn R, I observed that folks are often initially turned off R becaus

[R] [R-pkgs] adehabitatMA, LT, HR and HS version 0.1

2011-02-11 Thread Clément Calenge
Dear all, I have just uploaded 4 new packages on CRAN, which are on the long term designed to replace the "old" package adehabitat: * adehabitatMA: functions to perform spatial operations (morphology, buffer, etc.) * adehabitatHS: functions for the analysis of habitat selection by wildlife *

Re: [R] About classification methods.

2011-02-11 Thread Bert Gunter
> >> >> Which package should I using, and can I compare each classifier result by >> predictions? >> By prediction on the training data, emphastically no. By prediction on new data not used for training, yes. -- Bert __ R-help@r-project.org mailing lis

Re: [R] About classification methods.

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 1:36 PM, Jaeik Cho wrote: Dear R users, I'm new of the R, I really don't know much. I want classification some data (two class, many features and huge size of data) by using R. At this case, I want using Support Vector Machine, Bayes theory based classifier, Discrimi

Re: [R] linear models with factors

2011-02-11 Thread Ista Zahn
I don't see any question here, other than "can you please help me". Since long-awaited esp package has still not been released, you're going to have to be more specific than that... Best, Ista On Fri, Feb 11, 2011 at 2:05 PM, ATANU wrote: > > i am trying to fit a linear model with both continuou

Re: [R] take my name from the list

2011-02-11 Thread Steve Lianoglou
There is a link at the bottom of every email sent from this list: https://stat.ethz.ch/mailman/listinfo/r-help Go there, scroll to the bottom of page, and follow the unsubscribe instructions. On Fri, Feb 11, 2011 at 7:25 AM, Fernanda Melo Carneiro wrote: > How I can take out my name from this

Re: [R] take my name from the list

2011-02-11 Thread Sarah Goslee
The answer to that question appears on each and every message to the list, including this one. But for your convenience: https://stat.ethz.ch/mailman/listinfo/r-help On Fri, Feb 11, 2011 at 7:25 AM, Fernanda Melo Carneiro wrote: > How I can take out my name from this list? > -- Sarah Goslee ht

Re: [R] take my name from the list

2011-02-11 Thread Ista Zahn
See the link at the bottom of every message sent to this list... -Ista On Fri, Feb 11, 2011 at 7:25 AM, Fernanda Melo Carneiro wrote: > How I can take out my name from this list? > > Fernanda Melo Carneiro contato: (62) 3521-1480 e 8121-7374www.ecoevol.ufg.br > Laboratório de Ecologia Teórica e

Re: [R] take my name from the list

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 7:25 AM, Fernanda Melo Carneiro wrote: How I can take out my name from this list? Please read the information on the page where you signed up. Fernanda Melo Carneiro contato: (62) 3521-1480 e 8121-7374www.ecoevol.ufg.br Laboratório de Ecologia Teórica e Síntese (UFG)

Re: [R] cycle in a directed graph

2011-02-11 Thread rex.dwyer
If the graph has n nodes and is represented by an adjacency matrix, you can square the matrix (log_2 n)+1 times. Then you can multiply the matrix element-wise by its transpose. The positive entries in the 7th row will tell you all nodes sharing a cycle with node 7. This assumes all edge weigh

Re: [R] Tinn R

2011-02-11 Thread klatinez
Hi Dieter, It works for me. Thanks Karen -- View this message in context: http://r.789695.n4.nabble.com/Tinn-R-tp878805p3301466.html Sent from the R help mailing list archive at Nabble.com. [[alternative HTML version deleted]] __ R-help@r-pro

Re: [R] How can we make a vector call a function element-wise efficiently?

2011-02-11 Thread zhaoxing731
Dear Eik What a great idea!!! Thank you so much for your colossal improvment Yes, you have a unique eye on the numerical problem, I am worrying about this problem right now, hope you could give me new idea again Hi, you compute the same results for logx many times. So it is easier and time savin

[R] problem with installing packages

2011-02-11 Thread xin shi
Dear: I am recnetly trying to install some libraries. However, I found this issue for both my laptop and desktop even I uninstall and install it again. I even can not update the R now. I wonder if you have the similar issue. Thakns! Xin > chooseCRANmirror() Warning message: In open.co

Re: [R] Need help merging two dataframes

2011-02-11 Thread B77S
## i didn't try this, but I would think it would work newAB <-data.frame(AB$id, AB$age, AB$sex, AB$area) colnames(newAB)<-c("id","age", "sex, "area") uni.newAB <- unique(newAB) t3<-merge(t2, uni.newAB, by="id", all=FALSE) -- View this message in context: http://r.789695.n4.nabble.com/Need-he

[R] About classification methods.

2011-02-11 Thread Jaeik Cho
Dear R users, I'm new of the R, I really don't know much. I want classification some data (two class, many features and huge size of data) by using R. At this case, I want using Support Vector Machine, Bayes theory based classifier, Discriminant Analysis, Regression based at least. Which pack

[R] Package distr and define your own distribution

2011-02-11 Thread Gabriel.Cardi
Hi all I am using the Package "distr" (and related) Do you know if it is possible to define your own distribution (object) GIVEN that you have an analytical form of the probability density function (pdf) ? I would then like to use the standard feature of the "distr" and related packages. Bes

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread Gong-Yi Liao
If you have SAS, You can read Dr. Harrell's page: http://biostat.mc.vanderbilt.edu/wiki/Main/SASexportHowto if not, you can take a look on WPS: http://www.teamwpc.co.uk/products On Fri, 2011-02-11 at 10:32 -0600, Chao(Charlie) Huang wrote: > I am right now using Revolution R Enterprise 4.2.

[R] take my name from the list

2011-02-11 Thread Fernanda Melo Carneiro
How I can take out my name from this list? Fernanda Melo Carneiro contato: (62) 3521-1480 e 8121-7374www.ecoevol.ufg.br Laboratório de Ecologia Teórica e Síntese (UFG)   [[alternative HTML version deleted]] __ R-help@r-project.org maili

[R] linear models with factors

2011-02-11 Thread ATANU
i am trying to fit a linear model with both continuous covariates and factors. When fitted with the intercept term the first level of the factor is treated by R as intercept and the estimate of the effects of remaining levels(say i th level) are given as true estimate of i th level - estimate o

Re: [R] Getting p-value from summary output

2011-02-11 Thread Alice Lin
Awesome! Thanks so much! On Thu, Feb 10, 2011 at 6:13 PM, Dennis Murphy wrote: > Hi: > > Try > summary(myprobit)$coefficients[, 4] > > HTH, > Dennis > > On Thu, Feb 10, 2011 at 3:46 PM, Allie818 wrote: > >> >> I can get this summary of a model that I am running: >> >> summary(myprobit) >> >> Ca

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Steve Lianoglou
Hi, Another option is to go ahead and make the package structure you're used to, but try to load and use it via Hadley's devtools package, instead of installing it for use. It might do the trick for you: https://github.com/hadley/devtools -steve On Fri, Feb 11, 2011 at 2:14 PM, Dr. Michael Wo

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Gabor Grothendieck
On Fri, Feb 11, 2011 at 7:38 AM, S Ellison wrote: > > "Dr. Michael Wolf" 11/02/2011 07:52 >>> >>is there an easier way to write R packages for the own use - without > RTools and TeX? > > Installing Rtools is not hard, and doesn't have to happen often; the > hardest bit in Windows is making s

Re: [R] When is *interactive* data visualization useful to use?

2011-02-11 Thread Claudia Beleites
Dear Tal, dear list, I think the importance of interactive graphics has a lot do with how visual your scientific discipline works. I'm spectroscopist, and I think we are very visually oriented: if I think of a spectrum I mentally see a graph. So for that kind of work, I need a lot of interact

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Dr. Michael Wolf
Dear collegues, thanks for your helpfull and persuasive comments. I see that all of you propose to work with the official method building R packages. The code of importing functions which Barry Rowlingson posted to the forum is very interesting and perhaps I can use this for solving other prob

Re: [R] foreach with registerDoMC on R 2.12.0 OSX 10.6 --- errors and warnings

2011-02-11 Thread David Smith
Are you using doMC within the Mac GUI or from the Terminal? The doMC package doesn't work within the GUI, you need to run R directly from the command line. # David Smith On Fri, Feb 11, 2011 at 8:56 AM, ivo welch wrote: > some hints for the search engines. > > I just did >   install.packages("fo

Re: [R] Calling symbols from dataframe for xyplot

2011-02-11 Thread Greg Snow
The more common way to do this is to use groups, the default is to have a different color for each group, but you can change that using trellis.par.set: tmp <- trellis.par.get() tmp$superpose.symbol$pch = 0:10 trellis.par.set(tmp) xyplot(Sepal.Width ~ Petal.Width, data=iris, groups=Species, auto

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Uwe Ligges
On 11.02.2011 13:38, S Ellison wrote: "Dr. Michael Wolf" 11/02/2011 07:52>>> is there an easier way to write R packages for the own use - without RTools and TeX? Installing Rtools is not hard, and doesn't have to happen often; the hardest bit in Windows is making sure that the requisite

Re: [R] Where can I download/install grDevices

2011-02-11 Thread Peter Ehlers
On 2011-02-10 18:41, Dennis Murphy wrote: Hi: Here's one way: plot(1~1,ylab=expression("Areas ("~mu*m^2~")")) The tildes incorporate space between the math and text elements; they're optional, but useful. Another way that also works is plot(1~1,ylab=expression(paste("Areas (", mu*m^2, ")",

Re: [R] series of boxplots

2011-02-11 Thread Juliet Hannah
If you could provide a small example of an actual data set (using dput), you may get some suggestions specific to your goals. Here are a few examples of boxplots. If these look along the lines of what you are looking for, you may want to search the ggplot2 mailing list for more examples. library(

[R] Help optimizing EMD::extrema()

2011-02-11 Thread Mike Lawrence
Hi folks, I'm attempting to use the EMD package to analyze some neuroimaging data (timeseries with 64 channels sampled across 1 million time points within each of 20 people). I found that processing a single channel of data using EMD::emd() took about 8 hours. Exploration using Rprof() suggested t

Re: [R] extracting p-values from the Manova function (car library)

2011-02-11 Thread Ista Zahn
Hi, one approach is to modify getAnywhere(print.Anova.mlm) to return the information you want. Best, Ista On Fri, Feb 11, 2011 at 7:16 AM, Bettina Kulle Andreassen wrote: > hi, > > i am not able to extract the p-values from the > Manova function in the car library. I need > to use this functio

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread Martin Maechler
> "CH" == Chao(Charlie) Huang > on Fri, 11 Feb 2011 10:32:06 -0600 writes: CH> I am right now using Revolution R Enterprise 4.2. Could CH> somebody show me how to import/export SAS CH> datasets. Thanks. but not primarily on R-help, please. At first, note that R is GNU R

Re: [R] Large Datasets

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 7:51 AM, John Filben wrote: I have recently been using R - more speciifcally the GUI packages Rattle and Rcmdr. I like these products a lot and want to use them for some projects - the problem that I run into is when I start to try and run large datasets through them.

[R] foreach with registerDoMC on R 2.12.0 OSX 10.6 --- errors and warnings

2011-02-11 Thread ivo welch
some hints for the search engines. I just did install.packages("foreach") install.packages("doMC") library(doMC) registerDoMC() library(foreach) > foreach(i = 1:3) %dopar% sqrt(i) The process has forked and you cannot use this CoreFoundation functionality safely. You MUST exec(). Br

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 11:32 AM, Chao(Charlie) Huang wrote: I am right now using Revolution R Enterprise 4.2. Could somebody show me how to import/export SAS datasets. Thanks. Should you be asking the company from whom you obtained this proprietary product? -- David. On Fri, Feb 11, 2011

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread Chao(Charlie) Huang
Liao, Thanks for your reply. Those solutions you mentioned used CSV or 3rd party middleware. I used Revolution R for a while. Since last week Revolution R Enterprise 4.2 could read/write SAS native dataset(.sas7bdat format), I am looking for any documents to try this feature out. Anybody can gi

Re: [R] Passing function arguments

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 6:14 AM, Michael Pearmain wrote: Hi All, Im looking for some help passing function arguments and referencing them, I've made a replica, less complicated function to show my problem, and how i've made a work around for this. However i suspect there is a _FAR_ better w

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread Chao(Charlie) Huang
I am right now using Revolution R Enterprise 4.2. Could somebody show me how to import/export SAS datasets. Thanks. On Fri, Feb 11, 2011 at 8:52 AM, Abhijit Dasgupta, PhD wrote: > > I'm sure the legal ground is tricky. However, OpenOffice and LibreOffice and > KWord have been able to open the (

Re: [R] Extract a slot value from a 'SpatialPolygons' class object

2011-02-11 Thread David Winsemius
On Feb 11, 2011, at 5:11 AM, Xavier Hoenner wrote: Dear R-users, I’m currently trying to extract the value of a slot (area) but can’t find out how to do that. Generally the authors of S4 method provide extractor functions, so the first question would be what functions were used to create

Re: [R] Creating a ragged array

2011-02-11 Thread Gabor Grothendieck
On Fri, Feb 11, 2011 at 10:39 AM, Barth B. Riley wrote: > Dear list > > I am trying to figure out how to create a ragged array that consists of > groups of array elements (indices from the original array) of similar values. > I would like to create a ragged array that might look something like t

Re: [R] Loop in variable names

2011-02-11 Thread Eik Vettorazzi
Hi Stella, if you just want to print the tables, this should also work for(i in angus) { tab <- paste("table", i, sep="") cut <- paste("P",i, sep = "") print(table(StoreData$CompanyID, !is.na(StoreData[,cut]))) } If you want to keep them, your approach works, but you can also store the

[R] lattice auto.key gives mismatch colors

2011-02-11 Thread John Smith
Hello All, I am using the following code to draw a figure. But the legend given buy auto.key has mismatched colors. Could any one help me? I am using R2.12.1 and most current lattice on windows XP. Thanks John library(lattice) src <- data.frame(t=rep(c('A','B','C','D'), rep(8,4)),

[R] Creating a ragged array

2011-02-11 Thread Barth B. Riley
Dear list I am trying to figure out how to create a ragged array that consists of groups of array elements (indices from the original array) of similar values. I would like to create a ragged array that might look something like this: S[1] 11, 19, 14,7 S[2] 29,4,1,13,44 S[3] 56,9,2,35 S[4] 3

[R] cycle in a directed graph

2011-02-11 Thread amir
Hi, I have a directed graph and wants to find is there any cycle in it? If it is, which nodes or edges are in the cycle. Is there any way to find the cycle in a directed graph in R? Regards, Amir __ R-help@r-project.org mailing list https://stat.ethz.c

Re: [R] Revolution Analytics reading SAS datasets

2011-02-11 Thread Abhijit Dasgupta, PhD
I'm sure the legal ground is tricky. However, OpenOffice and LibreOffice and KWord have been able to open the (proprietary) MS Word doc format for a while now, and they are open source (and Libre Office might even be GPL'd), so the algorithm is in fact "published" in Jeremy's sense, and has b

Re: [R] Matrix of Matrices?

2011-02-11 Thread Petr Savicky
On Fri, Feb 11, 2011 at 06:17:16AM -0800, Alaios wrote: > Thanks that did the work. Once I have that list what is the easiest way to > export the structure as well as the contents (numbers) into a file. > > The purpose is to share that file with a colleague and ask him to load that > variable wi

Re: [R] Matrix of Matrices?

2011-02-11 Thread Alaios
Thanks that did the work. Once I have that list what is the easiest way to export the structure as well as the contents (numbers) into a file. The purpose is to share that file with a colleague and ask him to load that variable with its contents and structure. Best Regards Alex --- On Fri, 2/1

[R] RCurl - HTTP request of header ONLY

2011-02-11 Thread Janko Thyson
Hi everyone, I'm trying to send an HTTP request using RCurl that only requests the response header, not the actual content. http://curl.haxx.se/docs/httpscripting.html says you can do this by using the following option: curl --head http://www.something.com/ However, I can't figure out how to do

[R] Re. When is *interactive* data visualization useful to use?

2011-02-11 Thread Antony Unwin
Hello Tal, You asked *When is it helpful to use interactive plots? Either for data exploration (for ourselves) and data presentation (for a "client")?* My answer: It's helpful for checking data quality, for exploration with and without "clients", for checking results, and for data presenting.

Re: [R] How can we make a vector call a function element-wise efficiently?

2011-02-11 Thread Eik Vettorazzi
Hi ZhaoXing, without knowledge about the ultimate purpose of your calculations its quite difficult to give further hints. best regards Am 11.02.2011 14:35, schrieb zhaoxing731: > Dear Eik > > What a great idea!!! Thank you so much for your colossal improvment > Yes, you have a unique eye on the

Re: [R] Comparison of glm.nb and negbin from the package aod

2011-02-11 Thread Ben Bolker
sabwo gmx.at> writes: [big snip; comparing aod::negbin and MASS::glm.nb fits] > The thing i really dont understand is why there is such a big difference > between the deviances? (glm.nb = 30.67 and negbin=52.09?) Shouldnt they be > nearly the same?? > I don't have time to dig into this right

Re: [R] Large Datasets

2011-02-11 Thread Wonsang You
I have not ever tried to use any GUI package. Thus, I cannot give you a good help. Instead, I would like to report my experience of exploiting the 'ff' package to have access to large dataset. To achieve your goal, I think that you need to make any function which handles ff objects. According to m

Re: [R] fitdistr question

2011-02-11 Thread Ben Bolker
Antje Niederlein yahoo.de> writes: > > Hi Ingmar, hi Dennis, > > okay, you're right. I was expecting that the result would give the > best fit to my data even if it's not a real poisson distribution. It > looks somehow similar... > But how to judge the goodness of fit? I was using the residual

Re: [R] Using merge

2011-02-11 Thread Ronaldo Reis Junior
Hi, ignore my e-mail, a just use tolower function. thanks and sorry Ronaldo Em 11-02-2011 11:24, Ronaldo Reis Junior escreveu: > Hi, > > I have two tables and I need to merge both. I use the merge command, > but in this way the name must be exactly. How I can make to compare > independently o

[R] Passing function arguments

2011-02-11 Thread Michael Pearmain
Hi All, Im looking for some help passing function arguments and referencing them, I've made a replica, less complicated function to show my problem, and how i've made a work around for this. However i suspect there is a _FAR_ better way of doing this. If i do: BuildDecayModel <- function(x = "thi

Re: [R] When is *interactive* data visualization useful to use?

2011-02-11 Thread Mike Marchywka
> From: tal.gal...@gmail.com > Date: Fri, 11 Feb 2011 08:26:16 +0200 > To: r-help@r-project.org > Subject: [R] When is *interactive* data visualization useful to use? > > Hello all, > > Before getting to my question, I would like to apologize for asking th

[R] Extract a slot value from a 'SpatialPolygons' class object

2011-02-11 Thread Xavier Hoenner
Dear R-users, I’m currently trying to extract the value of a slot (area) but can’t find out how to do that. >str(overlperc) List of 1 $ :Formal class 'SpatialPolygons' [package "sp"] with 4 slots .. ..@ polygons :List of 1 .. .. ..$ :Formal class 'Polygons' [package "sp"] with 5 slots

[R] extracting p-values from the Manova function (car library)

2011-02-11 Thread Bettina Kulle Andreassen
hi, i am not able to extract the p-values from the Manova function in the car library. I need to use this function in a high-throughput setting and somehow need the p-values produced. Any ideas? Best regards Bettina Kulle Andreassen -- Bettina Kulle Andreassen University of Oslo Department

[R] Using filled.contour and contour functions together

2011-02-11 Thread Xavier Bodin
Dear R help contributors, I'd like to plot ground temperature with time on X-axis and depth on Y-axis on this datasets ( http://r.789695.n4.nabble.com/file/n3301033/NEdaily.csv NEdaily.csv ), and to do so I use the following commands: library(RSEIS) xNE <- seq(1, as.numeric

[R] censReg or tobit: testing for assumptions in R?

2011-02-11 Thread E Hofstadler
Hello! I'm thinking of applying a censored regression model to cross-sectional data, using either the tobit (package survival) or the censReg function (package censReg). The dependent variable is left and right-censored. My hopefully not too silly question is this: I understand that heteroskedast

[R] Using merge

2011-02-11 Thread Ronaldo Reis Junior
Hi, I have two tables and I need to merge both. I use the merge command, but in this way the name must be exactly. How I can make to compare independently of upper or lower-case? Look: data1<-data.frame(journal=c("Ecology","Environmental Entomology","Neotropical Biology And Conservation")) d

Re: [R] R example code of Split-plot Manova

2011-02-11 Thread John Fox
Dear Xiang Gao, See the OBrienKaiser example in ?Anova in the car package. I hope this helps, John > -Original Message- > From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] > On Behalf Of Xiang Gao > Sent: March-15-10 4:35 PM > To: r-help@r-project.org > Subject: [

Re: [R] How can we make a vector call a function element-wise efficiently?

2011-02-11 Thread Eik Vettorazzi
Hi, you compute the same results for logx many times. So it is easier and time saving tabulating all intermediate results. smth. like n<-10 CT=6000#assignment to CT NT=29535210#assignment to NT i <- 0:(n-1) lookup<- lchoose(NT-n, CT-i) + lchoose(n, i) lgmax<-cummax(lookup) c

[R] Ordinal logistic regression (lrm)- checking model assumptions

2011-02-11 Thread Anna Berthinussen
Dear all, I have been using the lrm function in R to run an ordinal logistic regression and I am a bit confused about the methods for checking the model assumptions. I have produced residual plots in R of the score.binary type which I think look ok. However, the partial type plots show be

[R] Large Datasets

2011-02-11 Thread John Filben
I have recently been using R - more speciifcally the GUI packages Rattle and Rcmdr. I like these products a lot and want to use them for some projects - the problem that I run into is when I start to try and run large datasets through them.  The data sets are 10-15 million in record quantity

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Barry Rowlingson
On Fri, Feb 11, 2011 at 12:33 PM, Spencer Graves wrote: > Dear Dr. Wolf: > > >      I understand your concern that the mechanics of writing an R package > can be difficult.  It was hard for me when I started. I should add that although I did write that import/reload code for simple development o

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread S Ellison
>>> "Dr. Michael Wolf" 11/02/2011 07:52 >>> >is there an easier way to write R packages for the own use - without RTools and TeX? Installing Rtools is not hard, and doesn't have to happen often; the hardest bit in Windows is making sure that the requisite executables are on the path, and that j

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Spencer Graves
Dear Dr. Wolf: I understand your concern that the mechanics of writing an R package can be difficult. It was hard for me when I started. I came to embrace it, because I actually got more done in less time doing so. In my previous experience, as code I wrote got more complicat

Re: [R] Matrix of Matrices?

2011-02-11 Thread Petr Savicky
On Thu, Feb 10, 2011 at 11:54:50PM -0800, Alaios wrote: > Dear all I have a few matrices that I would like to store alltogether under a > bigger object. > My matrixes with the same name were calculated inside a loop like > > for (few times){ > >estimatedsr<- this is my matrix >savematrix

Re: [R] Ggplot: free x-scales in a facet-grid

2011-02-11 Thread ONKELINX, Thierry
Dear Ann, The easiest way is to seperate both plots into two subplots. And then use viewport to paste them together. Best regards, Thierry p1 <- ggplot(subset(data.melt, pos = "FALSE"),aes(value,ID)) + geom_point(aes(groups=time,colour=time,shape=time)) + facet_grid(type~.,scales="fr

Re: [R] Writing R packages in an easier way?

2011-02-11 Thread Barry Rowlingson
On Fri, Feb 11, 2011 at 7:52 AM, Dr. Michael Wolf wrote: > Dear R colleagues, > > is there an easier way to write R packages for the own use - without RTools > and TeX? There are simpler ways of maintaining R source code than building packages. I bashed out a quick way of keeping code in directo

Re: [R] Simulation of Multivariate Fractional Gaussian Noise and Fractional Brownian Motion

2011-02-11 Thread Wonsang You
Dear Kjetil, Thank you so much for your advice on my question. Best Regards, Wonsang 2011/2/10 Kjetil Halvorsen > What you can do to find out is to type into your R session > RSiteSearch("multivariate fractional gaussian") > > That seems to give some usefull results. > > Kjetil > > On Tue, F

[R] How to compute "yaxp" and "usr" without plotting ?

2011-02-11 Thread Yves REECHT
Dear all, I'd like to know how I could compute the parameters "yaxp" and (the y components of) "usr" without having to plot the data first. Note that "ylim" is /a priori/ fixed. The aim is to automatically adjust the parameter "mgp" without having to make the plot twice. Then, with "yaxp" an

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