[R] Anyone using R to study Twitter social networks?

2008-12-01 Thread Earl F Glynn
I used several R-related search engines and found no hits about analyzing Twitter social networks using R. Perhaps an analysis of cliques among "following" vs "followers" for certain groups that tweet may be interesting. Has anyone waded through the Twitter API for analysis in R? Just curiou

[R] EURISBIS'09: First Announcement and Call for papers

2008-12-01 Thread Claudio Conversano
<< Please, accept our apologies if you receive multiple copies of this e-mail >> << Conference announcement and call for papers >> We are very glad to announce you the event that will be held in Cagliari in the next spring. EURISBIS’09 Euro

Re: [R] [R-sig-Geo] Variables inside a for

2008-12-01 Thread Frede Aakmann Tøgersen
How about doing something like: x <- 1:100 y1 <- 1 + 2*x + rnorm(x) y2 <- 2 + 3*x + rnorm(x) lm(cbind(y1,y2) ~ x) This is much faster. Yours sincerely / Venlig hilsen Frede Aakmann Tøgersen Statistician, M.Sc., Ph.D. Modeling, Statistics and Risk Analysis Wind and Site Competence Centre T

Re: [R] Installation of RCurl Windows binary package from BioC extra repos (was Re: [BioC] Rcurl 0.8-1 update for bioconductor 2.7)

2008-12-01 Thread Patrick Aboyoun
Roger, Given that you are having problems installing the RCurl package from source, I recommend you install the binary version of the package instead. (It sounds like you may need to clean up broken installations first.) Here is what an installation would look like on a machine without the lib

Re: [R] r2 for lm() with zero intercept

2008-12-01 Thread Berwin A Turlach
G'day Glenn, On Tue, 2 Dec 2008 17:02:26 +1100 <[EMAIL PROTECTED]> wrote: > Obviously the code is functioning properly then, but do you consider > this the best way of computing R^2 for a zero intercept? The way R does. What else would I say. ;-) That formula compares the variance explained by

Re: [R] r2 for lm() with zero intercept

2008-12-01 Thread Glenn.Newnham
Thanks Berwin Obviously the code is functioning properly then, but do you consider this the best way of computing R^2 for a zero intercept? I just checked what excel and genstat do in this situation and the R^2 they come up with reduces for a zero intercept rather than increases. This seems more

[R] Projection Pursuit Classification

2008-12-01 Thread ArunPrasad
Hi, Can anyone help me to understand why I am getting the error message like below? > Tree.result <- PP.Tree("LDA",iris[train,5],iris[train,1:4]) Warning messages: 1: In if (LR.name != n.name) { : the condition has length > 1 and only the first element will be used 2: In return(Alpha, C, IOi

Re: [R] Installation of RCurl Windows binary package from BioC extra repos (was Re: [BioC] Rcurl 0.8-1 update for bioconductor 2.7)

2008-12-01 Thread Day, Roger S
Thanks, Patrick. As I mentioned, this results in a hung system, I've waited as long as an hour, no progress in the GUI past "downloaded 234 Kb". The 00LOCK folder is created but is empty. An R.INSTALL. folder is created, with the unpacked package file. There is a README.windows file, but it see

Re: [R] vector

2008-12-01 Thread Charles C. Berry
On Mon, 1 Dec 2008, Hamid Hamid wrote: Dear All, I am trying to build a program which will take repeated samples without replacement from a population of values. The interesting catch is that I would like the sample values to be removed from the population, after each sample is taken. You mean

[R] Is there a function or package to perform the trend test considerring autocorrelation in the timeseries

2008-12-01 Thread Wang Yi
Dear all, I dont't understand the output of Mann-Kendall trend test in the R package "Kendall". Which value is the indicator of the potential significant trend? I wonder is there a function or package to perform the trend test considerring autocorrelation in the timeseries? Any suggestion i

Re: [R] r2 for lm() with zero intercept

2008-12-01 Thread Berwin A Turlach
G'day Glenn, On Tue, 2 Dec 2008 12:53:44 +1100 <[EMAIL PROTECTED]> wrote: > I'm a little confused about the R2 and adjusted R2 values reported by > lm() when I try to fix an intercept. When using +0 or -1 in the > formula I have found that the standard error generally increases (as > I would expe

Re: [R] vector

2008-12-01 Thread David Winsemius
> pop<-c(1,5,14,7,9,12,18,19,65,54) > samp <- sample(pop, 2, replace=FALSE) > samp [1] 14 9 > pop2<- pop[!pop %in% samp] > pop2 [1] 1 5 7 12 18 19 65 54 On Dec 1, 2008, at 2:29 PM, Hamid Hamid wrote: Dear All, I am trying to build a program which will take repeated samples without rep

[R] help with package Rwave

2008-12-01 Thread mauede
I am looking for some explanations about the usage of the poorely documented R paclkage Rwave. Has anyone ever tried out its functions for Wavelet Analysis ? Thank you so much. Maura Alice Messenger ;-) chatti anche con gli amici di Windows Live Messenger e tutti i telefonini TIM! Vai su http:/

Re: [R] exclude a vector value from another vector

2008-12-01 Thread Jorge Ivan Velez
Dear Hamid, Try this: > pop<-c(1,5,14,7,9,12,18,19,65,54) > pop [1] 1 5 14 7 9 12 18 19 65 54 > spop<-sample(pop,2) > spop [1] 14 19 > newpop=pop[!pop%in%spop] > newpop [1] 1 5 7 9 12 18 65 54 See ?"%in%"" for more information. HTH, Jorge On Mon, Dec 1, 2008 at 2:16 PM, Hamid Hamid

Re: [R] AIC function and Step function

2008-12-01 Thread Dana77
Thank you, Kingsford. Then I am wondering if there are other ways to write R codes to calculate the "weights" ? Thanks! Dana Kingsford Jones wrote: > > On Sun, Nov 30, 2008 at 5:05 PM, Dana77 <[EMAIL PROTECTED]> wrote: >> >> Thanks for kind help from Steven and Christos last time. Now I

[R] vector

2008-12-01 Thread Hamid Hamid
Dear All, I am trying to build a program which will take repeated samples without replacement from a population of values. The interesting catch is that I would like the sample values to be removed from the population, after each sample is taken. For example: pop<-c(1,5,14,7,9,12,18,19,65,54) s

Re: [R] [R-sig-Geo] Variables inside a for

2008-12-01 Thread Fernando Miguez
Hi Raphael, If you truly only need to run 4 regressions you might be less confused if you just do test1 <- lm(TX01 ~ INCOME, data = database) test2 <- lm(TX02 ~ INCOME, data = database) test3 <- lm(TX03 ~ INCOME, data = database) test4 <- lm(TX04 ~ INCOME, data = database) If you need to do t

[R] exclude a vector value from another vector

2008-12-01 Thread Hamid Hamid
Dear All, I am trying to build a program which will take repeated samples (w/o replacement) from a population of values. The interesting catch is that I would like the sample values to be removed from the population, after each sample is taken. For example: pop<-c(1,5,14,7,9,12,18,19,65,54) sa

[R] gretl Conference, Bilbao 2009

2008-12-01 Thread Ignacio Diaz-Emparanza
Dear r-help moderators: If you consider (as I hope) this message is not totally off-topic ¿could you please, redistribute to the r-help list? Thank you. - Gretl (GNU Regression, Economestrics and Time Series Library) is a cross-platform software package for econometric analysis, wri

[R] r2 for lm() with zero intercept

2008-12-01 Thread Glenn.Newnham
Hello list I'm a little confused about the R2 and adjusted R2 values reported by lm() when I try to fix an intercept. When using +0 or -1 in the formula I have found that the standard error generally increases (as I would expect) but the R2 also increases (which seems counter intuitive). I've pa

Re: [R] How to solve following equation?

2008-12-01 Thread Jorge Ivan Velez
Dear RON70, Another approach would be Ryacas [1]. Take a look at Section 5.3.2: > yacas("Newton((1+x)^3-(1+x)^2-(1+x)-1,x,0.1,0.1)") expression(0.839286755214161) Note that this result is _similar_ to Gabor Grothendieck's solution using optim(). HTH, Jorge [1] http://cran.r-project.org/w

[R] help on tapply using resample as FUN element

2008-12-01 Thread Jourdan Gold
my specific question is: I am attempting to create a bootstrap procedure for a finite sample using the theory of Rao and Wu, JASA (1988) that replicates within each strata (h) n_h - 1 times. I am able to sample n_h times using an innitial call to the resample function I suspect that it has to

Re: [R] How to solve following equation?

2008-12-01 Thread Gabor Grothendieck
Assume a = 1. If not set b = b/a, etc. Now use (1) uniroot > f <- function(x) b + c/(1+x) + d/(1+x)^2 - 1 - x > uniroot(f, 0:1) $root [1] 0.8392679 $f.root [1] 3.049818e-05 $iter [1] 3 $estim.prec [1] 6.103516e-05 or multiply through by 1+x and subtract 1 from both sides giving x = b + c/(1+x

[R] How to solve following equation?

2008-12-01 Thread RON70
I need to solve a equation like this : a = b/(1+x) + c/(1+x)^2 + d/(1+x)^3 where a,b,c,d are known constant. Is there any R-way to do that? Thanks in advance -- View this message in context: http://www.nabble.com/How-to-solve-following-equation--tp20785063p20785063.html Sent from the R help m

Re: [R] Spatstat - K2 index

2008-12-01 Thread Adrian Baddeley
Gough Lauren wrote: I'm using spatstat to investigate the spatial structure of an arid shrub population. The first-order intensity of my data does not appear to be homogenous, so I would like to use inhomogeneous techniques. I realise there is a inhomogeneous K-function available in spatstat, b

Re: [R] [R-sig-Geo] Variables inside a for

2008-12-01 Thread Gabor Grothendieck
Use this: lm(database[c(variable[i], "INCOME")]) On Mon, Dec 1, 2008 at 7:45 PM, Raphael Saldanha <[EMAIL PROTECTED]> wrote: > Hi! > > I had a database with some variables in sequence. Let me say: TX01, TX02, > TX03 and TX04. > > But I need to run some regressions changing the variables... so: >

Re: [R] Spatstat - K2 index

2008-12-01 Thread Rolf Turner
On 2/12/2008, at 4:30 AM, Gough Lauren wrote: Hi all, I'm using spatstat to investigate the spatial structure of an arid shrub population. The first-order intensity of my data does not appear to be homogenous, so I would like to use inhomogeneous techniques. I realise there is a inhom

Re: [R] optimization problem

2008-12-01 Thread Hans W. Borchers
Why not use one of the global optimizers in R, for instance 'DEoptim', and then apply optim() to find the last six decimals? I am relatively sure that the Differential Evolution operator has a better chance to come near a global optimum than a loop over optim(), though 'DEoptim' may be a bit slow

Re: [R] [BioC] BioC 2.3 standard installation

2008-12-01 Thread Hervé Pagès
[back to the lists] So it seems that r-base-dev forgets to depend on libatlas-base-dev You can fix this by installing libatlas-base-dev manually: apt-get install libatlas-base-dev This should solve the compilation/linking problem with KernSmooth, preprocessCore and any other package that nee

Re: [R] Variables inside a for

2008-12-01 Thread David Winsemius
?as.formula copied from the help file: ## Create a formula for a model with a large number of variables: xnam <- paste("x", 1:25, sep="") (fmla <- as.formula(paste("y ~ ", paste(xnam, collapse= "+" -- David Winsemius On Dec 1, 2008, at 7:45 PM, Raphael Saldanha wrote: Hi! I had a da

[R] Variables inside a for

2008-12-01 Thread Raphael Saldanha
Hi! I had a database with some variables in sequence. Let me say: TX01, TX02, TX03 and TX04. But I need to run some regressions changing the variables... so: variable <- paste("TX0", 1:4, sep="") for(i in 1:4){ test[i] <- lm(variable[i] ~ INCOME, data=database) } But doesn't work... lm tries t

Re: [R] Failure to subset in R v 2.8.0

2008-12-01 Thread Peter Dalgaard
Alan Cohen wrote: Hello, I've been using a pre-release version of R v 2.8.0 for Windows for the last couple months. I think that there have been consistent problems with subsetting data sets, but I had usually been able to find work-arounds or was unable to confirm this as a bug. I think no

[R] linear functional relationships with heteroscedastic & non-Gaussian errors - any packages around?

2008-12-01 Thread Jarle Brinchmann
Hi, I have a situation where I have a set of pairs of X & Y variables for each of which I have a (fairly) well-defined PDF. The PDF(x_i) 's and PDF(y_i)'s are unfortunately often rather non-Gaussian although most of the time not multi--modal. For these data (estimates of gas content in galaxies)

[R] Comparing output from linear regression to output from quasipoisson to determine the model that fits best.

2008-12-01 Thread John Sorkin
R 2.7 Windows XP I have two model that have been run using exactly the same data, both fit using glm(). One model is a linear regression (gaussian(link = "identity")) the other a quasipoisson(link = "log"). I have log likelihoods from each model. Is there any way I can determine which model is

Re: [R] [BioC] BioC 2.3 standard installation

2008-12-01 Thread Tiandao Li
On Mon, Dec 1, 2008 at 3:42 PM, Hervé Pagès <[EMAIL PROTECTED]> wrote: > Background: some CRAN or Bioconductor packages contain native code > that needs to be compiled and then linked against a system library. > Some of those libraries are not part of a standard Ubuntu installation > and need to

Re: [R] Failure to subset in R v 2.8.0

2008-12-01 Thread Rolf Turner
I just tried: set.seed(42) c <- data.frame(month=sample(1:12,50,TRUE),blah=sample(letters[1:4], 50,TRUE)) c[c$month==11,] and got month blah 1 11b 2111a 2811b 3011a 3911a 4711b All appears to be in harmony. So there would appear to be somet

Re: [R] chron and R 2.8

2008-12-01 Thread Gabor Grothendieck
I've had an offline conversion with Stephen about this and it seems that in R 2.8.0 order is much slower when applied to chron objects than previously. The fix for zoo users is to enter this line (which is already in the development version of zoo) before using any chron objects from zoo in your s

Re: [R] [BioC] BioC 2.3 standard installation

2008-12-01 Thread Hervé Pagès
Background: some CRAN or Bioconductor packages contain native code that needs to be compiled and then linked against a system library. Some of those libraries are not part of a standard Ubuntu installation and need to be installed explicitly (sudo apt-get install -dev). In the case of preprocessC

Re: [R] controlling the number of times a script is repeated in a loop

2008-12-01 Thread Carl Witthoft
quote: On Sun, Nov 30, 2008 at 12:21 PM, Salas, Andria Kay wrote: > I am running a large for loop and at the end of each iteration a matrix is produced. The program changes the columns in the matrix, and each time a column is added the name of that column is "y". All original columns have no

Re: [R] Failure to subset in R v 2.8.0

2008-12-01 Thread stephen sefick
Does it not work in the official release of R 2.8.0? On Mon, Dec 1, 2008 at 5:32 PM, Alan Cohen <[EMAIL PROTECTED]> wrote: > Hello, > > I've been using a pre-release version of R v 2.8.0 for Windows for the last > couple months. I think that there have been consistent problems with > subsetting

[R] Failure to subset in R v 2.8.0

2008-12-01 Thread Alan Cohen
Hello, I've been using a pre-release version of R v 2.8.0 for Windows for the last couple months. I think that there have been consistent problems with subsetting data sets, but I had usually been able to find work-arounds or was unable to confirm this as a bug. I think now I have, and would

[R] Adding a time difference to a datetime stamp

2008-12-01 Thread Brigid Mooney
I am trying to figure out a way to add a certain number of hours to a date/time stamp. Specifically, I have a string of date/time stamps that all have the time at midnight. I would like to be able to keep the date the same, but add a certain number of hours to create a new timestamp that is a few

Re: [R] [BioC] BioC 2.3 standard installation

2008-12-01 Thread Tiandao Li
I always followed http://cran.r-project.org/bin/linux/ubuntu/ to install R on Ubuntu 8.1. I had no errors before! > install.packages("XML") Warning in install.packages("XML") : argument 'lib' is missing: using '/usr/local/lib/R/site-library' --- Please select a CRAN mirror for use in this sessio

Re: [R] odfWeave and XML... on a Mac

2008-12-01 Thread Max Kuhn
In case anyone has a similar issue, this problem was related to how the results were being sent to the file. The offending code chunk used: <>= x<- 5 x @ which writes out the text "5" without any XML around it. When OO opens the document up, it ignores this text (instead of crashing) and shows n

Re: [R] align two lattice plots with grid

2008-12-01 Thread baptiste auguie
Many thanks, this tool from latticeExtra does exactly what I was trying to achieve! Best wishes, Baptiste On 1 Dec 2008, at 20:06, Deepayan Sarkar wrote: In general, the latticeExtra package has some tools to combine arbitrary trellis objects (thanks to Felix Andrews): library(latticeExtr

Re: [R] align two lattice plots with grid

2008-12-01 Thread Deepayan Sarkar
On Mon, Dec 1, 2008 at 8:13 AM, baptiste auguie <[EMAIL PROTECTED]> wrote: > Dear list, > > I need to align two plots on top of each other for comparison (they only > have the x-axis in common). When the y-labels have a different extent, I > cannot find a way to align the x-axes, as illustrated bel

Re: [R] How to refer to a list member by variable

2008-12-01 Thread Gavin Simpson
On Mon, 2008-12-01 at 10:53 -0800, Reitsma, Rene - COB wrote: > Dear All, > > I'm hoping one of you can help me with the following R problem. I'm > trying to refer to a member of a list by variable. However, this seems > not to work: > > foo=list(first=c(1:10),second=c(11:20)) > > > foo$first >

Re: [R] How to refer to a list member by variable

2008-12-01 Thread hadley wickham
On Mon, Dec 1, 2008 at 12:53 PM, Reitsma, Rene - COB <[EMAIL PROTECTED]> wrote: > Dear All, > > I'm hoping one of you can help me with the following R problem. I'm > trying to refer to a member of a list by variable. However, this seems > not to work: > > foo=list(first=c(1:10),second=c(11:20)) > >

[R] Installation of RCurl Windows binary package from BioC extra repos (was Re: [BioC] Rcurl 0.8-1 update for bioconductor 2.7)

2008-12-01 Thread Patrick Aboyoun
Hi Roger, Good to hear from you again. Given that RCurl is hosted in both the CRAN mirrors and in the Bioconductor extra repository, it can be a little confusing how to install it on your system. The recommended path is to follow the steps on the Bioconductor extra home page for RCurl http://

Re: [R] Help with lattice graphics

2008-12-01 Thread baptiste auguie
Hi, The main difference I saw between your two graphs was the stacking, which you can obtain by stack=TRUE in lattice. I'm not sure what cosmetic issues you had in mind. Perhaps you can try this, barchart(y~dfb|dfyr,dataf,layout=c(3,1),stack=T,ylim=c(0, 2.7), groups=dfa, strip

[R] How to refer to a list member by variable

2008-12-01 Thread Reitsma, Rene - COB
Dear All, I'm hoping one of you can help me with the following R problem. I'm trying to refer to a member of a list by variable. However, this seems not to work: foo=list(first=c(1:10),second=c(11:20)) > foo$first [1] 1 2 3 4 5 6 7 8 9 10 > foo$"first" [1] 1 2 3 4 5 6 7 8 9

Re: [R] [BioC] Rcurl 0.8-1 update for bioconductor 2.7

2008-12-01 Thread Day, Roger S
Hi Patrick, Greetings from !(sunny) Pittsburgh. What's the scoop on RCurl on windows (XP)? I've tried to install RCurl_0.92-0.zip and RCurl_0.9-3.zip, with both R 2.7.2 and R 2.8.0 from the RGUI (utils:::menuInstallLocal), and get the error "Windows binary packages in zipf

Re: [R] Update R, keep packages

2008-12-01 Thread Eric Archer
Will, Below are the contents of my Rprofile.site file. It makes sure that I have all of the packages I use regularly always up to date every time I start R. I don't know if it is the "smart" way, but it works for me. I'd be more than happy to get suggestions on improvements from the expeRts.

Re: [R] chron and R 2.8

2008-12-01 Thread Gabor Grothendieck
Please provide the input file so its reproducible. On Mon, Dec 1, 2008 at 1:12 PM, stephen sefick <[EMAIL PROTECTED]> wrote: > These are the two functions that I use to read the data in. I have > reverted back to R 2.7.2, chron 2.3-24, zoo 1.5-4, StreamMetabolism > 0.03. This configuration works

Re: [R] Randomization of a two-way ANOVA?

2008-12-01 Thread Greg Snow
This really depends on the question(s) that you are asking. If you want a simultaneous test of all your factors, then you can randomly permute the response many times and see where the original f-stat (or others) falls in the distribution of the randomized stats. If you want to test the interac

[R] Help with lattice graphics

2008-12-01 Thread ravi
Hi, I like the formatting and the appearance of lattice plots. But I have not succeeded in gettting the right format in my plots with the lattice package in one of my applications. In the code shown below, I start by constructing a general data frame and show my attempts with the lattice package

Re: [R] chron and R 2.8

2008-12-01 Thread stephen sefick
These are the two functions that I use to read the data in. I have reverted back to R 2.7.2, chron 2.3-24, zoo 1.5-4, StreamMetabolism 0.03. This configuration works just fine- like I expect and with considerable time speed up over both R 2.8 and chron 2.3-24 and 2.3-25. fmt.chron <- function (x

Re: [R] Non-interactive passing of quoted variables (ggplot, plyr, subset, transform, etc)

2008-12-01 Thread hadley wickham
On Mon, Dec 1, 2008 at 11:06 AM, Vitalie Spinu <[EMAIL PROTECTED]> wrote: > Hello Everyone, > May be a silly question. > > How to pass programmatically variables which are not known in advance and > are quoted? Variables are quoted implicitly in functions like "subset" and > "transform" and explic

Re: [R] chron and R 2.8

2008-12-01 Thread Gabor Grothendieck
The key thing to do is to provide some reproducible code that someone else can use to verify the problem even if you have to use it on 2.7.2 with the old chron and 2.8.0 with the new chron. On Mon, Dec 1, 2008 at 11:34 AM, stephen sefick <[EMAIL PROTECTED]> wrote: > I have built chron 2.3-24 unde

[R] Non-interactive passing of quoted variables (ggplot, plyr, subset, transform, etc)

2008-12-01 Thread Vitalie Spinu
Hello Everyone, May be a silly question. How to pass programmatically variables which are not known in advance and are quoted? Variables are quoted implicitly in functions like "subset" and "transform" and explicitly in ggplot and plyr. For instance I would like to have something like this

Re: [R] Update R, keep packages

2008-12-01 Thread Uwe Ligges
Will wrote: Hi, when updating R I continuously face the problem that I have to reinstall packages or copy them into the new R library path. Is there a smart way of configuring R (.Rprofile) so the packages installed under older R versions (different lib paths) are included/found by newer

Re: [R] Parameters of exponential power density

2008-12-01 Thread Jagat.K.Sheth
Maybe you can try one of Jim Lindsey's libraries available at http://popgen.unimaas.nl/~jlindsey/rcode.html If I recall, there is a function 'elliptic' in his 'growth' package that may help you. Otherwise, you can use one of R's nonlinear optimization functions, e.g. 'nlm', 'optim', etc. HTH

Re: [R] explaining a model with rcs() terms

2008-12-01 Thread Frank E Harrell Jr
Dylan Beaudette wrote: > On Mon, Dec 1, 2008 at 5:48 AM, Frank E Harrell Jr > <[EMAIL PROTECTED]> wrote: >> David Winsemius wrote: >>> On Nov 30, 2008, at 10:23 PM, Dylan Beaudette wrote: >>> Hi, I am using the rcs() function in the Design library to model non-linearity that is not well c

Re: [R] confidence interval for glm

2008-12-01 Thread Gavin Simpson
On Sun, 2008-11-30 at 01:15 -0500, David Winsemius wrote: > ?confint.glm # ... in MASS That provides confidence intervals on the parameters of the model, which is not what the OP wanted. He wants confidence intervals on: predict(mod, newdat) One way to do this is to compute them in the normal

Re: [R] chron and R 2.8

2008-12-01 Thread stephen sefick
I have built chron 2.3-24 under 2.8 and it is acting the same as 2.3-24 and as to the previous email the zoo version is the same for both. My next test will be to get 2.7.2 up and running again, and see what the behavior is under this version with the different versions of chron. I have not figur

Re: [R] Error: "subscript out of bounds"

2008-12-01 Thread Jagat.K.Sheth
Note that length(m) = 16, but your m is only 4x4. Try this m[is.na(m)] <- 0 -Original Message- From: [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] On Behalf Of Alex99 Sent: Monday, December 01, 2008 9:06 AM To: r-help@r-project.org Subject: [R] Error: "subscript out of bounds" Hi All, I

[R] Parameters of exponential power density

2008-12-01 Thread Schacka24
Hello! I must estimate the parameters of a exponential power density. There is the normalp package, but this works only for a shape parameter bigger than 1. But what should i do if the shape parameter is less than 1? (Sorry for my english) Thank you very much for help! -- View this message in con

[R] Error: "subscript out of bounds"

2008-12-01 Thread Alex99
Hi All, I am trying to replace the "NA" values in a matrix by using the following function: it gets a "name" of the matrix or list or vector and turns it to a matrix called "m". then checks the elements of the matrix and if any of them is "NA" replace them with "0". rep=function(name){ m=as.mat

[R] Update R, keep packages

2008-12-01 Thread Will
Hi, when updating R I continuously face the problem that I have to reinstall packages or copy them into the new R library path. Is there a smart way of configuring R (.Rprofile) so the packages installed under older R versions (different lib paths) are included/found by newer R versions (e.g

Re: [R] optimization problem

2008-12-01 Thread Mike Prager
tedzzx <[EMAIL PROTECTED]> wrote: > > If I want to find out the globle minia, how shoul I change my code? I sometimes use optim() within a loop, with random starting values for each iteration of the loop. You can save the objective function value each time and pick the best solution. Last time I

[R] Spatstat - K2 index

2008-12-01 Thread Gough Lauren
Hi all, I'm using spatstat to investigate the spatial structure of an arid shrub population. The first-order intensity of my data does not appear to be homogenous, so I would like to use inhomogeneous techniques. I realise there is a inhomogeneous K-function available in spatstat, but there does

[R] align two lattice plots with grid

2008-12-01 Thread baptiste auguie
Dear list, I need to align two plots on top of each other for comparison (they only have the x-axis in common). When the y-labels have a different extent, I cannot find a way to align the x-axes, as illustrated below, library(grid) library(lattice) x <- seq(0, 10, length=100) y <- sin(x)

Re: [R] explaining a model with rcs() terms

2008-12-01 Thread Dylan Beaudette
On Mon, Dec 1, 2008 at 5:48 AM, Frank E Harrell Jr <[EMAIL PROTECTED]> wrote: > David Winsemius wrote: >> >> On Nov 30, 2008, at 10:23 PM, Dylan Beaudette wrote: >> >>> Hi, I am using the rcs() function in the Design library to model >>> non-linearity that is not well characterized by an otherwise

Re: [R] factanal question

2008-12-01 Thread John Fox
Dear Bill, Thanks for pointing out that this functionality is already in the psych package. Shouldn't factor.residuals() avoid this computation for oblique rotations? Regards, John -- John Fox, Professor Department of Sociology McMaster University Hamilton, Ontario,

Re: [R] explaining a model with rcs() terms

2008-12-01 Thread Dylan Beaudette
On Sun, Nov 30, 2008 at 7:57 PM, David Winsemius <[EMAIL PROTECTED]> wrote: > > On Nov 30, 2008, at 10:23 PM, Dylan Beaudette wrote: > >> Hi, I am using the rcs() function in the Design library to model >> non-linearity that is not well characterized by an otherwise >> mechanistic function. I am ab

Re: [R] RODBC - problems connecting to oracle through linux

2008-12-01 Thread Whit Armstrong
I've had a good experience with the ROracle driver. Any reason why you need RODBC? -Whit On Mon, Dec 1, 2008 at 10:17 AM, Prof Brian Ripley <[EMAIL PROTECTED]> wrote: > On Fri, 28 Nov 2008, Simon Collins wrote: > >> Hi >> >> I'm presently trying to connect to Oracle through RODBC / UnixODBC on

Re: [R] Error in sqlCopy in RODBC

2008-12-01 Thread BKMooney
The exact syntax I am running in R is as follows: query <- " select * from tblHistorical where MyDate between '2008-11-21' and '2008-11-25' ; " sqlCopy(RemoteChannel, query, "NewTable", destchannel=LocalChannel, safer=TRUE, append=TRUE, rownames=FALSE, fast=FALSE) Both RemoteChannel and LocalCh

Re: [R] chron and R 2.8

2008-12-01 Thread Gabor Grothendieck
Two things to try: - try running both under 2.7.2 instead of trying both under 2.8 - if you know how to build packages from source then try rebuilding the chron you have under 2.7.2 using 2.98. You can find it here: http://cran.r-project.org/src/contrib/Archive/chron/ On Mon, Dec 1, 2008 at 10:

Re: [R] chron and R 2.8

2008-12-01 Thread stephen sefick
I found the library where all of the older packages are located. library(chron, lib = "/Library/Frameworks/R.Framework/Versions/2.7/Resources/library") Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared library '/Library/Frameworks/R.Framework/Versions/2.7/Resources/library

Re: [R] gee + rcs

2008-12-01 Thread Frank E Harrell Jr
Heymans, M.W. wrote: Hi all, I have fitted a gee model with the gee package and included restricted cubic spline functions. Here is the model: chol.g <- gee(SKIN ~ rcs(CHOLT, 3), id=ID, data=chol, family=binomial(link="logit"), corstr="exchangeable") To extract the log odds I use: predict

Re: [R] factanal question

2008-12-01 Thread William Revelle
Don and John, factor.residuals in the psych package does what you want (and basically what John wrote). Bill At 9:30 AM -0500 12/1/08, John Fox wrote: Dear Don, All long as you leave the factors unrotated or do an orthogonal rotation (as is the default), you can compute reproduced correl

Re: [R] RODBC - problems connecting to oracle through linux

2008-12-01 Thread Prof Brian Ripley
On Fri, 28 Nov 2008, Simon Collins wrote: Hi I'm presently trying to connect to Oracle through RODBC / UnixODBC on linux (Red Hat 5). I've successfully connected through the easysoft drivers but the trial license has run out and I'm trying to connect via the default Oracle 11G driver. Howeve

Re: [R] Randomization of a two-way ANOVA?

2008-12-01 Thread Mike Lawrence
I guess I have to retract my concern regarding the use of the F-statistic in the randomization/permutation test. The code below demonstrates concurrently testing three statistics when normality & heterogeneity is violated. The statistics are: F, sum-squared deviation of each group mean from the mea

Re: [R] S4 slot containing either aov or NULL

2008-12-01 Thread Thomas Kaliwe
Thank you! Matthias Kohl schrieb: Dear Thomas, take a look at setOldClass ... ## register "aov" (an S3-class) as a formally defined class setOldClass("aov") ## "list" and some others are special cases; cf. class ? list ## now your code should work setClassUnion("aovOrNULL", c("aov", "NULL"))

[R] gee + rcs

2008-12-01 Thread Heymans, M.W.
Hi all, I have fitted a gee model with the gee package and included restricted cubic spline functions. Here is the model: chol.g <- gee(SKIN ~ rcs(CHOLT, 3), id=ID, data=chol, family=binomial(link="logit"), corstr="exchangeable") To extract the log odds I use: predict.glm(chol.g, type = "l

Re: [R] factanal question

2008-12-01 Thread John Fox
Dear Don, All long as you leave the factors unrotated or do an orthogonal rotation (as is the default), you can compute reproduced correlations among the variables from the factor loadings, and thus residual correlations given the loadings and the original correlation matrix, both of which are acc

Re: [R] explaining a model with rcs() terms

2008-12-01 Thread Frank E Harrell Jr
David Winsemius wrote: > > On Nov 30, 2008, at 10:23 PM, Dylan Beaudette wrote: > >> Hi, I am using the rcs() function in the Design library to model >> non-linearity that is not well characterized by an otherwise >> mechanistic function. I am able to make the model 'available' to >> others throu

Re: [R] request: how to assign alphabets to integer values

2008-12-01 Thread Muhammad Azam
Dear Gabor Grothendieck Thanks a lot for the help. M. Azam From: Gabor Grothendieck <[EMAIL PROTECTED]> Cc: R-help request <[EMAIL PROTECTED]>; R Help Sent: Monday, December 1, 2008 12:46:06 PM Subject: Re: [R] request: how to assign alphabets to integer value

Re: [R] Hiding information about functions in newly developed packages

2008-12-01 Thread Kenn Konstabel
I accidentally found this old thread on "hiding the function's code" to (presumably) avoid confusing the users. And here is my amateurish question: why can't it be done just by defining a print.function, something like this: print.function<-function(x) cat("function", deparse(substitute(x)), "is t

[R] Question about the rgroup option in Hmisc latex function

2008-12-01 Thread Ista Zahn
Is there a way to use the rgroup option without creating horizontal rules separating the groups? For example, say I have the following matrix containing sample sizes, means, and standard deviations, for three groups of male and female participants: > descriptives n MeanSD Male "2"

Re: [R] Coercing a list of variables in a function call

2008-12-01 Thread Dimitris Rizopoulos
try the following: model.it <- function (form, data, factor.id) { if (!missing(factor.id) && all(factor.id %in% names(data))) data[factor.id] <- lapply(data[factor.id], factor) glm(form, data = data) } y <- c(1,2.1,3.3,4.3,5,6.5) x1 <- c(1,1,1,2,2,2) x2 <- c(1,2,3,1,2,3) x3 <- c(

[R] Coercing a list of variables in a function call

2008-12-01 Thread Philip Whittall
This is hopefully a trivial problem for list subscribers, but I am very new to writing R functions. I wish to call an R function written by myself from another program to fit a model. I need to tell it which of the independent variables are factors. I need to do this in a generic way, so that when

[R] 2D density tophat

2008-12-01 Thread Aaron Robotham
Hello R users, I have successfully created a square (or more generally, rectangular) tophat smoothing routine based on altering the already available KDE2D. I would be keen to implement a circular tophat routine also, however this appears to be much more difficult to write efficiently (I h

Re: [R] request: how to assign alphabets to integer values

2008-12-01 Thread Gabor Grothendieck
Try: transform(iris, Species = factor(Species, labels = letters[1:3])) On Mon, Dec 1, 2008 at 4:35 AM, Muhammad Azam <[EMAIL PROTECTED]> wrote: > Dear R community > I am trying to assign alphabets to integer values 1, 2, 3 etc. in y given > below. Can any body suggest some simple way to do the s

Re: [R] Regex: workaround for variable length negative lookbehind

2008-12-01 Thread Wacek Kusnierczyk
Gabor Grothendieck wrote: > On Mon, Dec 1, 2008 at 12:20 AM, Wacek Kusnierczyk > <[EMAIL PROTECTED]> wrote: > >> Gabor Grothendieck wrote: >> >>> Try this: >>> >>> >>> vec <- c("", "baaa", "bbaa", "bbba", "baamm", "aa") >>> grep("^(?!(.)\\1{1,}

[R] request: how to assign alphabets to integer values

2008-12-01 Thread Muhammad Azam
Dear R community I am trying to assign alphabets to integer values 1, 2, 3 etc. in y given below. Can any body suggest some simple way to do the same job? ds=iris; dl=nrow(ds) c1=ds[,1]; c2=ds[,2]; c3=ds[,3]; c4=ds[,4]; c5=ds[,5]; iris=cbind(c1,c2,c3,c4,c5) y=iris[,5] y1=which(y==1); y[y1] <- c(

Re: [R] Regex: workaround for variable length negative lookbehind

2008-12-01 Thread Gabor Grothendieck
On Mon, Dec 1, 2008 at 12:20 AM, Wacek Kusnierczyk <[EMAIL PROTECTED]> wrote: > Gabor Grothendieck wrote: >> Try this: >> >> >>> vec <- c("", "baaa", "bbaa", "bbba", "baamm", "aa") >>> >> >> >>> grep("^(?!(.)\\1{1,}$).*(.)\\2{1,}$", vec, perl = TRUE) >>> > > or even > > grep("^(?!(.)\\1+$).*(.)

Re: [R] Examples of advanced data visualization

2008-12-01 Thread Vitalie Spinu
Hi, I find this interesting: http://blog.thejit.org/javascript-information-visualization-toolkit-jit/ It would be nice to have R exporting graphs into these kind of things. Vitalie. On Fri, 28 Nov 2008 16:55:12 +0100, Hans W. Borchers <[EMAIL PROTECTED]> wrote: Dear R-help, I am looking f

Re: [R] Examples of advanced data visualization

2008-12-01 Thread Ted Harding
On 01-Dec-08 09:22:34, Gábor Csárdi wrote: > On Mon, Dec 1, 2008 at 10:21 AM, Gábor Csárdi <[EMAIL PROTECTED]> > wrote: >> On Mon, Dec 1, 2008 at 10:08 AM, Ted Harding >> <[EMAIL PROTECTED]> wrote: >> [...] >>> I visited that URL (with the extra "t"!), and got a message >>> from my browser (Iceweas

Re: [R] Graphics for proportion within factor

2008-12-01 Thread Jim Lemon
Rob James wrote: BODY { font-family:Arial, Helvetica, sans-serif;font-size:12px; }I am looking to draw what I hoped was a simple plot of proportion WITHIN a strata, save % males by site. I seem to be able to get proportion of males, by site, where the proportion is across the whole dataset, bu

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