Re: [R] request: most repeated component of a list

2008-09-11 Thread Muhammad Azam
May be i could not explain properly. Actually there are components of list i.e. [[1]] to [[500]]. Each component containing r-rows (may be different for each [[ k ]] and c-columns same for all). I have to compare all the [[ k ]] components of that list and found the one appearing maximum no of time

Re: [R] All possible pairs of two variables

2008-09-11 Thread Matthias Kohl
take a look at the code of the function pairwise.table. It shows a way using function outer. hth, Matthias Yihui Xie wrote: Just simple loops as follows: z = NULL for (y in 0:10) { for (x in 0:y) { z = rbind(z, c(x, y)) } } z

[R] Handling time-series-Data

2008-09-11 Thread Kunzler, Andreas
Dear List, I ran into some problems with time-series-Data. Imagine a data-structure where observations (x) of test attendants (i) are made a four times (q) a year (y). The data is orderd the following way: I y q x 1 20061 1 1 20063 1 1

[R] data import

2008-09-11 Thread afshin fallah
Dear All, I have a data set containing 2,122,164 records and 38198952 fields. I can not import this data due to "momory problem". Is there a way to solve this problem? Thanks [[alternative HTML version deleted]] __ R-help@r-project.org ma

[R] WG: Re: WG: Re: NMDS and varimax rotation

2008-09-11 Thread Bernd Panassiti
hello Gavin, yes, you might be right. I performed a comparison of a normal NMDS (with metaMDS) and a subsequent rotation with varimax. The rotation didn't seem to improve significantly the the alignment of the former ordination output. Thanks for your hint & greetings. Bernd Panassiti __

Re: [R] data import

2008-09-11 Thread Richard . Cotton
> I have a data set containing 2,122,164 records and 38198952 fields. > I can not import this data due to "momory problem". > Is there a way to solve this problem? 1. Filter the data before you import it. Do you really need all 38 million fields? Can you ignore some of the 2 million records?

Re: [R] request: most repeated component of a list

2008-09-11 Thread Adam D. I. Kramer
That is indeed different from what I thought the first time. x <- sapply(1:length(l), function(x) { sum(sapply(l, function(y) { if ( nrow(l[[x]]) != nrow(y) | ncol(l[[x]]) != ncol(y) ) FALSE else sum(y != l[[x]]) == 0 })) } ) names(x) <- names(l) Then, x has the same names as l, and

Re: [R] RSiteSearch for words ``as one entity''.

2008-09-11 Thread Prof Brian Ripley
It transpires that this is really messy: Namazu does not in general accept encoded URLs. (They seem to work for query= but not for sort= !) So RSiteSearch(URLencode("{logistic regression}")) might be a solution, but toUrl(qs2) is not (in general). On Thu, 11 Sep 2008, Prof Brian Ripley wrote:

Re: [R] RSiteSearch for words ``as one entity''.

2008-09-11 Thread Dr Eberhard W Lisse
Brian, open will call whatever program is defined for a certain extension. You can set this with a plug in to System Preferences called Default Apps for example. So on my Mac(s) Firefox is the default. el On 11 Sep 2008, at 08:33 , Prof Brian Ripley wrote: If firefox is involved on a

Re: [R] relsurv package

2008-09-11 Thread Giulia Barbati
Thank you. But the problem with the "relsurv" package remains: when I try to use the function "rsmul" following the package example, it give me an error (Error in nrow(x) : object "x" not found). There are perhaps others packages to fit relative survival models ? Giulia - Original Messag

Re: [R] arima and xreg

2008-09-11 Thread Jose Capco
On Sep 11, 6:24 am, David Stoffer <[EMAIL PROTECTED]> wrote: > Your model is close, but not correct... there are no t's on the parameters > and the U's aren't lagged. > > You can find an ARMAX example on our "quick fix" > page:http://www.stat.pitt.edu/stoffer/tsa2/R_time_series_quick_fix.htm. T

[R] How to obtain a sequence of dates consisting of only weekdays

2008-09-11 Thread Weiyang Lim
Dear R-users, How do I obtain a sequence of dates consisting of only weekdays without the weekends in R? In S, I can do the following: timeSeq(from="12/17/2007", to="8/25/2008", by="weekdays") I tried using looking at timeSequence (fSeries package) and seq.Date (base package) but I do not kno

Re: [R] request: most repeated component of a list

2008-09-11 Thread Muhammad Azam
Thanks for the effort but still we are far from the desired result. May be this example will help you to understand the situation. Example a1=c(1:12); a1=array(a1,dim=c(3,4)); a2=c(1:12); a2=array(a2,dim=c(3,4)); a3=c(1:16) a3=array(a3,dim=c(4,4)); a=list(a1,a2,a3); a [[1]] [,1] [,2

Re: [R] Handling time-series-Data

2008-09-11 Thread Achim Zeileis
On Thu, 11 Sep 2008, Kunzler, Andreas wrote: Dear List, I ran into some problems with time-series-Data. Imagine a data-structure where observations (x) of test attendants (i) are made a four times (q) a year (y). The data is orderd the following way: I y q x 1 2006

[R] Package for financial options calculation

2008-09-11 Thread Arun Kumar Saha
Hi all, Is there any R package on "European/American oprions pricing"? And on calculation of it's sensitivities? Regards, [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PL

Re: [R] RSiteSearch for words ``as one entity''.

2008-09-11 Thread Prof Brian Ripley
On Thu, 11 Sep 2008, Dr Eberhard W Lisse wrote: Brian, open will call whatever program is defined for a certain extension. You can set this with a plug in to System Preferences called Default Apps for example. Yes, I do know that. I was pointing out that I tested Safari, not Firefox. So

Re: [R] relsurv package

2008-09-11 Thread Prof Brian Ripley
On Thu, 11 Sep 2008, Giulia Barbati wrote: Thank you. But the problem with the "relsurv" package remains: when I try to use the function "rsmul" following the package example, it give me an error (Error in nrow(x) : object "x" not found). What did the maintainer say when you asked (see the po

Re: [R] request: most repeated component of a list

2008-09-11 Thread Dimitris Rizopoulos
try the following: ff <- function (x) { do.call("paste", c(as.data.frame(x), sep = "\r", collapse = "")) } pats <- sapply(a, ff) ind <- which.max(table(pats)) a[[ind]] I hope it helps. Best, Dimitris > Thanks for the effort but still we are far from the desired result. May be > this exampl

Re: [R] How to obtain a sequence of dates consisting of only weekdays

2008-09-11 Thread Yihui Xie
draw a subset of your data using a logical vector like this: # for 50 weeks rep(c(rep(TRUE, 5), rep(FALSE, 2)), 50) Yihui On Thu, Sep 11, 2008 at 4:31 PM, Weiyang Lim <[EMAIL PROTECTED]> wrote: > Dear R-users, > > How do I obtain a sequence of dates consisting of only weekdays without the > wee

[R] Difference in p-values between R and SPSS

2008-09-11 Thread Kåre Edvardsen
My apologies for asking slightly about SPSS in addition to R... Could not find an exact answer in the archives on whether R and SPSS may give different p-vals when output for coeffs and conf-intervals are the same. Amyway, a colleague and I are doing a very simple coxreg analyses and get the same

Re: [R] request: most repeated component of a list

2008-09-11 Thread Muhammad Azam
Thanks a lot for this effort. - Original Message From: Dimitris Rizopoulos <[EMAIL PROTECTED]> To: Muhammad Azam <[EMAIL PROTECTED]> Cc: [EMAIL PROTECTED]; R Help Sent: Thursday, September 11, 2008 10:52:16 AM Subject: Re: [R] request: most repeated component of a list try the follow

Re: [R] How to obtain a sequence of dates consisting of only weekdays

2008-09-11 Thread Yihui Xie
In fact, you can even use weekdays() to get the names of the weekdays and then use the operator "%in%" to exclude the weekends. In this case, I'm sure there will be no further problems :-) Yihui On Thu, Sep 11, 2008 at 5:33 PM, Weiyang Lim <[EMAIL PROTECTED]> wrote: > I see. That's a nice idea. T

Re: [R] How to obtain a sequence of dates consisting of only weekdays

2008-09-11 Thread Yihui Xie
Then you can use c() to add the indices of those weeks which are not "complete", or use something like this # from Tuesday to next Wedsday > !(2:10 %% 7) %in% c(0,6) [1] TRUE TRUE TRUE TRUE FALSE FALSE TRUE TRUE TRUE Yihui On Thu, Sep 11, 2008 at 5:08 PM, Weiyang Lim <[EMAIL PROTECTED]> w

[R] boxplot

2008-09-11 Thread Daniela Garavaglia
Sorry, I have some troubles with the graph device. How can I draw the whiskers in a boxplot? Thank's so much. Daniela [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help P

[R] Help on executing R from java

2008-09-11 Thread Nouira Kaouther
Hello, I've installed Rserve and I've run it. I've installed the JRclient-RF503.jar. I've installed JDK 1.4.2 and R language version 2.7.1. Now when I compile the Jrclient exeamples from JBUILDER 9? an error appreas: package org.rosuda.JRclient does not exist ... could you please help me? T

Re: [R] Difference in p-values between R and SPSS

2008-09-11 Thread Uwe Ligges
Kåre Edvardsen wrote: My apologies for asking slightly about SPSS in addition to R... Could not find an exact answer in the archives on whether R and SPSS may give different p-vals when output for coeffs and conf-intervals are the same. Amyway, a colleague and I are doing a very simple coxreg

Re: [R] boxplot

2008-09-11 Thread Uwe Ligges
Daniela Garavaglia wrote: Sorry, I have some troubles with the graph device. How can I draw the whiskers in a boxplot? 1. Whiskers in a boxplot are independent of the device. 2. I do see whiskers, e.g. in boxplot(1:10) so I do not undertsnad your question at all. Uwe Ligges Thank'

Re: [R] Convex optimization in R?

2008-09-11 Thread Hans W. Borchers
Hesen Peng gmail.com> writes: > > Hi my R buddies, > > I'm trying to solve a specific group of convex optimization in R. The > admissible region is the inside and surface of a multi-dimensional > eclipse area and the goal function is the sum of absolution values of > the variables. Could any on

[R] Error: bad value

2008-09-11 Thread tolga . i . uzuner
Dear R Users, I am getting a strange error, also relayed by Jose Quesada about a year ago. As below, in his message, I get "Error: bad value" to whatever I enter into the R console. My configuration is: - Windows XP SP2 - R 2.7.2 Has this problem been tracked down to a specific package ? I a

Re: [R] data import

2008-09-11 Thread jim holtman
You can use a "connection" and read a portion of the data in at a time and process it. Do you need all the data at once? If so, I would agree that you either need more memory (and possibly a 64-bit version of the system), or you come up with a different approach to your processing. You have not i

Re: [R] How to obtain a sequence of dates consisting of only weekdays

2008-09-11 Thread Gabor Grothendieck
See ?is.holiday in chron, e.g. library(chron) s <- seq(from = chron("12/17/2007"), to = chron("8/25/2008")) s.weekday <- s[!is.holiday(s)] As discussed there one can also optionally define a .Holidays vector containing dates which will also be excluded. It also works with any class for which the

Re: [R] periodicity validation

2008-09-11 Thread stephen sefick
all of the functions that I listed are time series tools for looking at what I think you want. this can be done you just have to understand the methodology. So, look at some of the things that I suggested, If these don't help then I don't understand what you want, and it is necissary for you to

[R] count value

2008-09-11 Thread Alfredo Alessandrini
Hi, I've this data.frame: > dia X1006109F X1006110F X1006111F X1006112F X1006113F X1006114F X1006115F 1NANANANANA45NA X1006116F X1006117F X1006118F X1006119F X1006120F X1006122F X1006123F 145NANANA

Re: [R] count value

2008-09-11 Thread Chuck Cleland
On 9/11/2008 8:11 AM, Alfredo Alessandrini wrote: > Hi, > > I've this data.frame: > >> dia > X1006109F X1006110F X1006111F X1006112F X1006113F X1006114F X1006115F > 1NANANANANA45NA > X1006116F X1006117F X1006118F X1006119F X1006120F X100

Re: [R] count value

2008-09-11 Thread Henrique Dallazuanna
Try this: sum(!is.na(dia)) On Thu, Sep 11, 2008 at 9:11 AM, Alfredo Alessandrini <[EMAIL PROTECTED]>wrote: > Hi, > > I've this data.frame: > > > dia > X1006109F X1006110F X1006111F X1006112F X1006113F X1006114F X1006115F > 1NANANANANA45NA

Re: [R] periodicity validation

2008-09-11 Thread Jeff Ryan
Take a look at the xts package. ?periodicity HTH Jeff yk-4 wrote: > > There is a series of data contains time in fixed step and energy > varying with time, how to test its periodicity?In R, it seems there is > no direct tools since I have search the R manual with periodic and I > have not foun

Re: [R] Package for financial options calculation

2008-09-11 Thread Jeff Ryan
Take a look at the fOptions package, as well as all the packages in Rmetrics (see www.rmetrics.org). There is also a wrapper to QuantLib called RQuantLib. Also, your question would have a better chance of being answered on the R-sig-finance mailing list. HTH Jeff Arun Kumar Saha wrote: > > H

Re: [R] yahoo finance into R

2008-09-11 Thread Jeff Ryan
Take a look at quantmod. http://www.quantmod.com http://www.quantmod.com ?getSymbols.yahoo (called by getSymbols) ?getQuote ?yahooQF ?getFin ?getFX HTH Jeff thomastos wrote: > > Hi R, > > I am familiar with the basics of R. > To learn more I would like how to get data from Yahoo!finance di

Re: [R] All possible pairs of two variables

2008-09-11 Thread hadley wickham
On Wed, Sep 10, 2008 at 11:34 PM, Ron Michael <[EMAIL PROTECTED]> wrote: > I have two variables (x,y) : > > x : it takes all integer values from 0 to y and, > y : takes all values from 0, 10 > > I am looking for some R code to find all possible pairs of (x,y). Can anyone > please help me? ?expand

Re: [R] Handling time-series-Data

2008-09-11 Thread Gabor Grothendieck
On Thu, Sep 11, 2008 at 3:37 AM, Kunzler, Andreas <[EMAIL PROTECTED]> wrote: > Dear List, > > I ran into some problems with time-series-Data. > > Imagine a data-structure where observations (x) of test attendants (i) are > made a four times (q) a year (y). The data is orderd the following way: > I

Re: [R] All possible pairs of two variables

2008-09-11 Thread Yihui Xie
But x is from 0 to "y" instead of a fixed number (say, 10)... If we are to use expand.grid(), we should filter out half of rows in the result: > z = expand.grid(0:10, 0:10) > z[z[,1] <= z[,2], ] Var1 Var2 1 00 12 01 13 11 23 02 24 12 25 22 34

[R] fft: from characteristic funtion to density function

2008-09-11 Thread Jindan Zhou
Hello all! I've posted the question before but I am still struggling for an answer, please help if you can;-) Suppose a discrete series of data is generated by the following equation: CF=exp(-(t^2)/2) which is the characteristic function of a random variable X with standard normal distribution, ho

[R] How to load functions in R

2008-09-11 Thread Mihai.Mirauta
Hello, I am trying to use self created functions in other scripts than the one where they are stored. For the moment I am using the following structure of commands to do that: 1. Load the text file with the functions in the current script: x=parse("path") 2. transform the tex in a function: f1=e

Re: [R] How to load functions in R

2008-09-11 Thread bartjoosen
Take a look at ?source Mihai.Mirauta wrote: > > > Hello, > > I am trying to use self created functions in other scripts than the one > where they are stored. > For the moment I am using the following structure of commands to do > that: > > 1. Load the text file with the functions in the curr

Re: [R] How to load functions in R

2008-09-11 Thread Yihui Xie
Hi, you may save your functions somewhere on your disk using "save()" and load them next time when you want to use them. See ?save and ?load Yihui On Thu, Sep 11, 2008 at 9:30 PM, <[EMAIL PROTECTED]> wrote: > > Hello, > > I am trying to use self created functions in other scripts than the one >

[R] different results form summarization by loop and sum or rowMeans function

2008-09-11 Thread Markus Schmidberger
Hi, I found different results calculating the rowMeans by the function rowMeans() and a simple for-loop. The differences are very low. But after this calculation I will start some optimization algorithms (BFGS or CG) and there I get huge differences (from the small changes in the beginning or

Re: [R] different results form summarization by loop and sum or rowMeans function

2008-09-11 Thread jim holtman
How low is "very low"? This is probably answered by FAQ 7.31 On Thu, Sep 11, 2008 at 9:49 AM, Markus Schmidberger <[EMAIL PROTECTED]> wrote: > Hi, > > I found different results calculating the rowMeans by the function > rowMeans() and a simple for-loop. The differences are very low. But after > t

Re: [R] Convex optimization in R?

2008-09-11 Thread Ravi Varadhan
Ken Lange's MM `algorithm' is a possibility for these non-smooth,, convex problems. It has been implemented in `constrOptim' for handling linear inequality constraints in the minimization of smooth objective functions. I have extended this to nonlinear inequalities. It can be further extended fo

Re: [R] Mixed effects model with binomial errors - problem

2008-09-11 Thread RFTW
ok... the model now runs properly (say, without errors). Now about the result. These are the averages per treatments tapply(VecesArbolCo.VecesCo.C1,T2,mean) a b c d 0.49 0.56 0.45 0.58 I run this very simple model > summary(model1<-lmer(cbind(VisitsExpTree,TotalVisits-VisitsEx

Re: [R] different results form summarization by loop and sum or rowMeans function

2008-09-11 Thread Prof Brian Ripley
On Thu, 11 Sep 2008, Markus Schmidberger wrote: Hi, I found different results calculating the rowMeans by the function rowMeans() and a simple for-loop. The differences are very low. But after this Indeed, but the C code (rowMeans) is likely to be more accurate as it uses an extended-precis

Re: [R] How to load functions in R

2008-09-11 Thread Adaikalavan Ramasamy
I would recommend saving the functions into a separate file and then using source() as bartjoosen suggested. I do not recommend using save() here because the output is non-readable (even when using ascii=TRUE option). Which means that you have to load() it, then copy-and-paste into an editor b

Re: [R] Convex optimization in R?

2008-09-11 Thread roger koenker
I would be very wary of such approaches; my experience is that MM is inferior to the early affine-scaling versions of interior point algorithms for linear programming problems, and modern implementations like the Mehrotra version of the primal dual algorithm are much, much quicker and more r

[R] plotCI -- multiple plots on same graph

2008-09-11 Thread bioinformatics_guy
I have a bunch of lines I want to plot using plotCI() What Id like to know is, how can I connect the points with a line and how can I print multiple lines on the same graph? -- View this message in context: http://www.nabble.com/plotCImultiple-plots-on-same-graph-tp19435198p19435198.html Se

Re: [R] writing simple function through script

2008-09-11 Thread rao fu
Hi Benoit, If you are in the directory that contains your data, you can use > NC60 = read.table("NC60.DATA") # there are some arguments you can use in "read.table" OR >NC60 = read.table("path to your data/NV60.DATA") > yo(NC60) By the way, I do not know your "LgmFormula". I think you already

[R] Smoothing Spline Clustering

2008-09-11 Thread Marco Chiapello
Hi, I need to use the Smoothing Spline Clustering (SSC): genemerge.bioteam.net/SSClust-Manual.pdf But it doesn't work! If someone can try it and help me! In the folder you will find a file named SSClust.R, but, I do not why, it doesn't work. Also the SSClust.test.R file doesn't work, but it produ

Re: [R] How to load functions in R

2008-09-11 Thread Yihui Xie
We may just read them in the R console instead of an external editor, and "fix()" or "edit()" them when we need to make any modifications. A trivial advantage of saving them as an image file in Windows is that you can double-click the file and R will be started with these objects loaded automatical

Re: [R] How to load functions in R

2008-09-11 Thread Mihai.Mirauta
Hello, It seems that all methods work. Source() however loads only the last function. with save(a,b,file="path") i can save more than 1 function. Thanks a lot, Mihai -Ursprüngliche Nachricht- Von: Yihui Xie [mailto:[EMAIL PROTECTED] Gesendet: Donnerstag, 11. September 2008 16:48 An:

[R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread hadley wickham
Dear all, I've been struggling to perform common operations on dates that I need to be able to correct draw date-time scales - in particular I need to be able to round/truncate/ceiling dates to arbitrary precision - e.g. to weeks, months or years (or multiples thereof). I haven't been able to fin

Re: [R] plotCI -- multiple plots on same graph

2008-09-11 Thread brandon
1) Look into plotmeans(), a wrapper function for plotCIit may be more appropriate for what you're looking for and one of the default options is to connect the points with lines. Otherwise you'll have to do a separate call to lines() after each plotCI() call. 2) To put multiple data sets on the

Re: [R] How to load functions in R

2008-09-11 Thread Martin Maechler
> "YX" == Yihui Xie <[EMAIL PROTECTED]> > on Thu, 11 Sep 2008 22:47:47 +0800 writes: YX> We may just read them in the R console instead of an external editor, YX> and "fix()" or "edit()" them when we need to make any modifications. A YX> trivial advantage of saving them as

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread Whit Armstrong
I'm wrapping boost date_time into an R package. I'll post it up to cran shortly. http://www.boost.org/doc/libs/1_36_0/doc/html/date_time.html I'm not sure if that is what you are looking for, but there are a lot of useful utilities in this library. -Whit On Thu, Sep 11, 2008 at 11:02 AM, hadl

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread hadley wickham
> I'm wrapping boost date_time into an R package. I'll post it up to > cran shortly. > > http://www.boost.org/doc/libs/1_36_0/doc/html/date_time.html > > I'm not sure if that is what you are looking for, but there are a lot > of useful utilities in this library. Looks useful, but I didn't see any

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread Gabor Grothendieck
See ?cut.Date In the zoo package see: ?as.yearmon ?as.yearqtr ?aggregate.zoo and the many examples in: ?plot.zoo ?xyplot.zoo as well as the three zoo vignettes. Also in the xts package look at ?to.period For regularly spaced series the tis package supports a wide variety of time bases and can c

[R] csaps in R port from Octave?

2008-09-11 Thread Dr Carbon
Since I'm getting no joy looking for an R implementation of the matlab function csaps, can anybody advise me on porting csaps from Octave? There is an octave implementation of csaps here: http://octave.svn.sourceforge.net/viewvc/octave/trunk/octave-forge/nonfree/spline-gsvspl/inst/csaps.m This fu

[R] [R-pkgs] new RMySQL and new maintainer

2008-09-11 Thread David James
Hello, [This is a re-posting of a previous announcement; I believe the original posting of a couple of days ago didn't go through.] The latest version of RMySQL 0.6-1 is now in CRAN. Please see the NEWS file for more details. Also, I'm happy to announce that Jeff Horner <[EMAIL PROTECTED]> has k

[R] how to calcaulate matrices for two subsets

2008-09-11 Thread Xianchun Liao
I am an R beginner and trying to run a market model using event study in R framework. First, I run a market model, that is lm(stock security~SP500 index, subset=Obs[197, 396]) ->result1 Then I get predict results for a new dataset using predict (result1, newdata=Obs[397,399]) ->pred1 Pred1 s

Re: [R] request: most repeated component of a list

2008-09-11 Thread Adam D. I. Kramer
Did you try my function? I don't see how it doesn't fit the need of this reexplanation. For this set, x would end up equal to c(2,2,1), indicating that array 1 appears twice in the set and array 2 appears twice in the set. So, array 1 and array 2 appear maximally in the set. So, look at a[[1]] or

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread Whit Armstrong
probably not pre-canned routines for that, but very easy to implement with the tools provided in the library. Looks like most of what you want to do is fairly simple and not worth the trouble of involving c++. but things like month_durations and year_durations make it clear that the authors have

[R] subscript out of bounds

2008-09-11 Thread Dorothy Cheung
I'm working on Human Exon Array 1.0 ST. I'm getting normalized data fine but I'm running into problems with QC. QCReport gives me the following error: > load(file= "huex10stv2cdf.rda") > [EMAIL PROTECTED] <- "huex10stv2cdf" > QCReport(exon.data, file = "QCReport.pdf") Error in as.vector(an

Re: [R] RSiteSearch for words ``as one entity''.

2008-09-11 Thread Henrik Bengtsson
On Wed, Sep 10, 2008 at 11:33 PM, Prof Brian Ripley <[EMAIL PROTECTED]> wrote: > If firefox is involved on a Mac, that is one difference. My Mac is using > 'open' (the default, I believe) and that is calling Safari (the default, I > believe). > > Yes, it would be the job of browseURL to encode URL

[R] creating a package with internal (hiden) S4 classes and methods

2008-09-11 Thread Marie-Pierre Sylvestre
Dear R users, I am writing my first R package and it finally past the R CMD check. Before sending it to CRAN, I would like to check a few issues. 1. I created s4 classes and methods in the package but I want only 1 function (foo) to be available to users and documented in the manual that goe

[R] Calculate mean/var by ID

2008-09-11 Thread liujb
Hello, I have a data set that looks like this. IDvalue 111 5 111 6 111 2 178 7 178 3 138 3 138 8 138 7 138 6 . . . I'd like to calculate the mean and var for each object identified by the ID. I can in theory just loop through the whole thing..., but is th

Re: [R] fft: from characteristic funtion to density function

2008-09-11 Thread Matthias Kohl
take a look at http://finzi.psych.upenn.edu/R/Rhelp02a/archive/130153.html hth, Matthias Jindan Zhou wrote: Hello all! I've posted the question before but I am still struggling for an answer, please help if you can;-) Suppose a discrete series of data is generated by the following equation: C

Re: [R] arima and xreg

2008-09-11 Thread David Stoffer
You can have lagged inputs in the xreg statement, you just have to construct the input matrix properly so the dimensions are the same, e.g., x = ts.intersect(mort, trend, part, lag(part,-4)) arima(x[,1],order=c(2,0,1), xreg=x[,2:4]) ... and yes you have to worry about singularities or even multi

Re: [R] Calculate mean/var by ID

2008-09-11 Thread Henrique Dallazuanna
Try: with(x, sapply(list(mean, var), function(x)tapply(value, ID, x))) On Thu, Sep 11, 2008 at 2:45 PM, liujb <[EMAIL PROTECTED]> wrote: > > Hello, > > I have a data set that looks like this. > IDvalue > 111 5 > 111 6 > 111 2 > 178 7 > 178 3 > 138 3 > 138 8 > 138

Re: [R] Calculate mean/var by ID

2008-09-11 Thread Adam D. I. Kramer
aggregate(value,list(ID=ID),mean) aggregate(value,list(ID=ID),var) --Adam On Thu, 11 Sep 2008, liujb wrote: Hello, I have a data set that looks like this. IDvalue 111 5 111 6 111 2 178 7 178 3 138 3 138 8 138 7 138 6 . . . I'd like to calculate the me

Re: [R] how to calcaulate matrices for two subsets

2008-09-11 Thread Adam D. I. Kramer
Hi Bill, Tell me more about the Obs object. The "subset" of an lm should be a vector telling the lm which observations to use...if Obs[197,396] is a single number, only one observation will be used, and chances are your model is not what you intended. Also, predict(result1,newdata=Obs[397,339])

Re: [R] Calculate mean/var by ID

2008-09-11 Thread Jorge Ivan Velez
Dear Julia, Try also x=read.table(textConnection("IDvalue 111 5 111 6 111 2 178 7 178 3 138 3 138 8 138 7 138 6"),header=TRUE) closeAllConnections() attach(x) do.call(rbind,tapply(value,ID, function(x){ res=c(mean(x,na.rm=TRUE),var(x,na.rm=TRUE)) names(res

[R] Plot qnorm

2008-09-11 Thread Talina Ruiz
Hi, I have this problem: X is hazardous variable N(mean 2, sd=3) >>question 1) Find the c value, so that P(X>c)=0.10. using R >>question 2) Graph the function N(2,3) and with this graph, explain what you do in question number 1. I just found question number one but not the second one. So, I'd

[R] database table merging tips with R

2008-09-11 Thread Avram Aelony
Dear R list, What is the best way to efficiently marry an R dataset with a very large (Oracle) database table? The goal is to only return Oracle table rows that match IDs present in the R dataset. I have an R data frame with 2000 user IDs analogous to: r = data.frame(userid=round(runif(20

Re: [R] How to load functions in R

2008-09-11 Thread Adaikalavan Ramasamy
Strange. source() should read all the function in that file unless there was a syntax error or something else preventing the other function from being parsed correctly. Could you send us a simplified example that reproduces this problem? Thanks. Regards, Adai [EMAIL PROTECTED] wrote: H

Re: [R] database table merging tips with R

2008-09-11 Thread Aaron Mackey
I would load your set of userid's into a temporary table in oracle, then join that table with the rest of your SQL query to get only the matching rows out. -Aaron On Thu, Sep 11, 2008 at 2:33 PM, Avram Aelony <[EMAIL PROTECTED]> wrote: > > Dear R list, > > What is the best way to efficiently marr

Re: [R] database table merging tips with R

2008-09-11 Thread Aaron Mackey
Sorry, I see now you want to avoid this, but you did ask what was the "best way to efficiently ...", and the temp. table solution certainly matches your description. What's wrong with using a temporary table? -Aaron On Thu, Sep 11, 2008 at 3:05 PM, Aaron Mackey <[EMAIL PROTECTED]> wrote: > I wou

Re: [R] How to load functions in R

2008-09-11 Thread Adam D. I. Kramer
Source(file.path) executes the file at file.path in order, just as if you had typed it in. So, the source file should in fact name each function in turn: f1 <- function(x) { ... } f2 <- function(x) { ... } ...etc. So a good way to debug is to just copy and paste lines from your source file into

Re: [R] database table merging tips with R

2008-09-11 Thread Avram Aelony
Perhaps I will need to create a temp table, but I am asking if there is a way to avoid it. It would be great if there were a way to tie the R data frame temporarily to the query in a transparent fashion. If not, I will see if I can create/drop the temp table directly from sqlQuery. -Avram

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread Jeffrey J. Hallman
Look at the ti (Time Index) class in package tis. Here's some examples I just did: > x <- Sys.Date() > x [1] "2008-09-11" > ti(x, "wsaturday") ## a ti for the week that x falls into [1] 20080913 class: ti > ti(x + 1, "wsaturday") - 1 ## ti for the latest complete week [1] 20080906 class:

Re: [R] Calculate mean/var by ID

2008-09-11 Thread Adaikalavan Ramasamy
A slight variation of what Jorge has proposed is: f <- function(x) c( mu=mean(x), var=var(x) ) do.call( "rbind", tapply( df$value, df$ID, f ) ) mu var 111 4.33 4.33 138 6.00 4.67 178 5.00 8.00 Regards, Adai Jorge Ivan Velez wrote: Dear J

Re: [R] database table merging tips with R

2008-09-11 Thread Aaron Mackey
I guess I'd do it something like this: dbGetQuery(con, "CREATE TEMPORARY TABLE foo ( etc etc)") sapply(@userids, function (x) { dbGetQuery(con, paste("INSERT INTO foo (userid) VALUES (", x, ")")) }) then later: dbGetQuery(con, "DROP TABLE foo"); -Aaron On Thu, Sep 11, 2008 at 3:21 PM, Avram Ae

Re: [R] boxplot

2008-09-11 Thread John Kane
Perhaps your data does not have whiskers? x <- c(4,5,6,4,5,6,4,5,6,4,5,6) boxplot(x) # No whiskers boxplot(1:10) # whiskers --- On Thu, 9/11/08, Daniela Garavaglia <[EMAIL PROTECTED]> wrote: > From: Daniela Garavaglia <[EMAIL PROTECTED]> > Subject: [R] boxplot > To: r-help@r-project.org > Re

Re: [R] database table merging tips with R

2008-09-11 Thread Coey Minear
Aaron Mackey writes: > I guess I'd do it something like this: > > dbGetQuery(con, "CREATE TEMPORARY TABLE foo ( etc etc)") > sapply(@userids, function (x) { dbGetQuery(con, paste("INSERT INTO foo > (userid) VALUES (", x, ")")) }) > > then later: > > dbGetQuery(con, "DROP TABLE foo"); >

Re: [R] Plot qnorm

2008-09-11 Thread G. Jay Kerns
Dear Talina, On Thu, Sep 11, 2008 at 2:28 PM, Talina Ruiz <[EMAIL PROTECTED]> wrote: > Hi, > > I have this problem: > > X is hazardous variable N(mean 2, sd=3) > >>>question 1) Find the c value, so that P(X>c)=0.10. using R > >>>question 2) Graph the function N(2,3) and with this graph, explain wh

Re: [R] database table merging tips with R

2008-09-11 Thread Coey Minear
While the subquery with a temporary table is probably the better option, you could just manually generate the subquery and pass it in with the query. As an example, if you have user_ids 1000-1005, instead of having "... where user_id in (select user_id from r_user_id)", you would have "... where u

[R] plot of all.effects object

2008-09-11 Thread David Afshartous
All, I'm trying to plot an all.effects() object, as shown in the help for all.effects and also Crawley's R book (p.178, 2007). The data has a repeated measures structure, but I'm using all.effects for the simple lm() fit here. Below is a reproducible example that yields the error message. fm.

Re: [R] database table merging tips with R

2008-09-11 Thread Avram Aelony
I have not devoted time to setting up ROracle since binaries are not available and it seems to require some effort to compile (see http://cran.r-project.org/web/packages/ROracle/index.html). On the other hand, RODBC worked more or less magically once I set up the data sources. What is your su

Re: [R] Difference in p-values between R and SPSS

2008-09-11 Thread Thomas Lumley
That is a larger difference in p-values than I would expect due to numerical differences and stopping criteria. My guess is that you are running across the different approximations for tied failure times. If so, you will get better agreement with SPSS by using method="breslow" in coxph().

Re: [R] How to load functions in R

2008-09-11 Thread Rolf Turner
On 12/09/2008, at 2:53 AM, <[EMAIL PROTECTED]> wrote: Hello, It seems that all methods work. Source() however loads only the last function. This is absolute nonsense. You are doing something wrong and/or not understanding what you are doing. This is bad practice.

Re: [R] plot of all.effects object

2008-09-11 Thread John Fox
Dear David, You have to spell the name of term correctly: plot(fm.effects, "time.num:drug:X") (Admittedly, the error message is cryptic: I'll look into that.) A couple of other comments: (1) There is only one high-order term in your model, so it's not necessary to use all.effects(); (2) if you

Re: [R] plot of all.effects object

2008-09-11 Thread David Afshartous
Dear John, Thanks and sorry for the typo. For the example below, how do I get the time.num variable to correspond to the x-axis? I tried refitting the model with a different order of supplied variables but this didn't do it. Cheers, David On 9/11/08 4:28 PM, "John Fox" <[EMAIL PROTECTED]>

Re: [R] database table merging tips with R

2008-09-11 Thread Coey Minear
Avram Aelony writes: > > I have not devoted time to setting up ROracle since binaries are > not available and it seems to require some effort to compile (see > http://cran.r-project.org/web/packages/ROracle/index.html). On the > other hand, RODBC worked more or less magically once I set up t

Re: [R] Truncating dates (and other date-time manipulations)

2008-09-11 Thread hadley wickham
On Thu, Sep 11, 2008 at 12:04 PM, Whit Armstrong <[EMAIL PROTECTED]> wrote: > probably not pre-canned routines for that, but very easy to implement > with the tools provided in the library. > > Looks like most of what you want to do is fairly simple and not worth > the trouble of involving c++. > >

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