Re: [R] Change font type PNG device with Lattice xyplot

2009-04-29 Thread RBlonk
Thanks! I found an other, less elegant, way as well. (This always happens, just after asking someone else) a-data.frame(x=c(1:5),y=c(2,2,3,3,4)) require(lattice) png(filename=let's change the font.png, width=480, height=300, pointsize=12) xyplot(y~x,data=a, ylab=list(y-axis,font=6),

Re: [R] Batch importing data with respective naming

2009-04-29 Thread Taylor Hermes
It seems that this addition works, but has created just one object called 'peak' with all the data from those 100 files. I'd like each file to have a corresponding object containing the data. Thanks for your help! On Tue, Apr 28, 2009 at 19:43, Zeljko Vrba zv...@ifi.uio.no wrote: On Tue, Apr

Re: [R] How to read the summary

2009-04-29 Thread Prof Brian Ripley
On Tue, 28 Apr 2009, K. Elo wrote: mathallan wrote: How can I from the summary function, decide which glm (fit1, fit2 or fit3) fits to data best? I don't know what to look after, so I would please explain the important output. Start with the AIC value (Akaike Information Criterion). The

Re: [R] Batch importing data with respective naming

2009-04-29 Thread Adrián Cortés
By doing peak - list() you initialize a list and then you are adding the data objects to the list in the for loop.To access each data object just go: peaks[[i]] Where i is in [1,100]. This will return the data object you want. Adrian On Tue, Apr 28, 2009 at 11:23 PM, Taylor Hermes

Re: [R] plot.lm cex.caption

2009-04-29 Thread Martin Maechler
H == HighSchool2005 gemeaux...@yahoo.fr on Tue, 28 Apr 2009 06:29:07 -0700 (PDT) writes: H Hello dear R users, H My objective is to change the size of this graphic : plot(lm(a~b), 4) H (Cook's distance) H I have found the help on the internet saying to change the size of

Re: [R] Newbie R question PART2

2009-04-29 Thread Dieter Menne
Tena Sakai tsakai at gallo.ucsf.edu writes: I learned 3 new tricks. (Not bad for a newbie?) $ R --silent --no-save barebone.R $ R --quiet --no-save barebone.R $ R --slave barebone.R And don't forget R --vanilla which I like most because of the taste. Dieter

Re: [R] truehist and density plots

2009-04-29 Thread Jim Lemon
carol white wrote: Hi, I wanted to plot the histogram of a vector and then, plot the density function of subsets of the vector on the histogram. So I use truehist in MASS package and lines(density) as follows: length(b) = 1000 truehist(b) lines(density(b[1:100])) however the density plot of

Re: [R] colored PCA biplot

2009-04-29 Thread Cuvelier Etienne
Hillary Cooper a écrit : Hi- I'm trying to make my PCA (princomp) colored. In my csv excel sheet, I have the first column numbered according to the groupings I want to assign to the PCA. I've played around with trying to set this first column as the color vector, but haven't had any luck. Any

Re: [R] Newbie R question PART2

2009-04-29 Thread Wacek Kusnierczyk
Wacek Kusnierczyk wrote: Dieter Menne wrote: R --vanilla which I like most because of the taste. once we talk about preferences, here's the version which i like most because of (a) least typing, (b) the non-pompous little r: ... and (c) superior performance (in this

Re: [R] Newbie R question PART2

2009-04-29 Thread Wacek Kusnierczyk
Dieter Menne wrote: Tena Sakai tsakai at gallo.ucsf.edu writes: I learned 3 new tricks. (Not bad for a newbie?) $ R --silent --no-save barebone.R $ R --quiet --no-save barebone.R $ R --slave barebone.R And don't forget R --vanilla which I like most because of the

Re: [R] correlation coefficient

2009-04-29 Thread Dieter Menne
Bert Gunter gunter.berton at gene.com writes: Martin's reply provides an appropriate response, so nothing to add. But my questions dig deeper: Why do so many (presumably nonstatisticians, but ?) belong to this R^2 religion? Is it because: 1) This is what they are taught in their Stat 101

Re: [R] problem with symbol function

2009-04-29 Thread Christophe Dutang
Based on your solution, could we not fix this issue for the symbol function? Le 27 avr. 09 à 23:47, Duncan Murdoch a écrit : On 27/04/2009 5:23 PM, Christophe Dutang wrote: so it could be a limitation of graphics on windows? It's not graphics on Windows, but it appears to be a limitation

Re: [R] Newbie R question PART2

2009-04-29 Thread Tena Sakai
Hi, That's pretty impressive performance, but wait. Where does this little r come from? And how does it differ from its big brother? Regards, Tena Sakai tsa...@gallo.ucsf.edu -Original Message- From: r-help-boun...@r-project.org on behalf of Wacek Kusnierczyk Sent: Wed 4/29/2009

Re: [R] send command to other program

2009-04-29 Thread thoeb
Thanks! I have not used system before. May it works if command ist the call for the program, but how can I integrate the transfer of the file names (strings) from R to the program? Ranjan Maitra wrote: Does ?system help? Ranjan On Tue, 28 Apr 2009 13:00:28 -0700 (PDT) thoeb

[R] ANOVA in Randomized-complete blocks design

2009-04-29 Thread aalisiyan
Hi, I am trying to do an analysis of variance for Randomized-complete blocks design. I have 4 treatments and 3 replication, without intraction.then I am going to use LSD test for comparison between medium values of treatments. I already did that in SAS, but I am not familiar with R very well.

Re: [R] Newbie R question PART2

2009-04-29 Thread Wacek Kusnierczyk
Tena Sakai wrote: Hi, That's pretty impressive performance, but wait. Where does this little r come from? And how does it differ from its big brother? the little r comes from littler [1]. it doesn't claim to be larger than it is. [1] http://dirk.eddelbuettel.com/code/littler.html

[R] selecting ith rows of a matrix

2009-04-29 Thread Umesh Srinivasan
Hi all, If I have a huge matrix/ dataframe and I want to create a new matrix/ dataframe with every second (or third, or fourth etc.) row of the original matrix, how can I do it? Any help much appreciated. Thanks, Umesh [[alternative HTML version deleted]]

Re: [R] selecting ith rows of a matrix

2009-04-29 Thread baptiste auguie
Try this, a = matrix(rnorm(10*10),ncol=10) a[, seq(1,ncol(a),by=2)] baptiste On 29 Apr 2009, at 09:28, Umesh Srinivasan wrote: Hi all, If I have a huge matrix/ dataframe and I want to create a new matrix/ dataframe with every second (or third, or fourth etc.) row of the original

Re: [R] Cannot update.packages (error message)

2009-04-29 Thread Uwe Ligges
Richardson, Patrick wrote: Uwe, I deleted gregmisc from by library folder and ran update.packages() again and I still get the same error: package 'fBasics' successfully unpacked and MD5 sums checked Error in unpackPkg(foundpkgs[okp, 2L], foundpkgs[okp, 1L], lib) : malformed bundle

Re: [R] selecting ith rows of a matrix

2009-04-29 Thread Dimitris Rizopoulos
probably you want to use seq(), e.g., mat - matrix(1:500, 100, 5) mat[seq(1, nrow(mat), 2), ] mat[seq(1, nrow(mat), 3), ] mat[seq(1, nrow(mat), 4), ] I hope it helps. Best, Dimitris Umesh Srinivasan wrote: Hi all, If I have a huge matrix/ dataframe and I want to create a new matrix/

Re: [R] selecting ith rows of a matrix

2009-04-29 Thread Umesh Srinivasan
Thanks a lot Baptiste Dimitris, It's working! Cheers, Umesh On Wed, Apr 29, 2009 at 2:06 PM, Dimitris Rizopoulos d.rizopou...@erasmusmc.nl wrote: probably you want to use seq(), e.g., mat - matrix(1:500, 100, 5) mat[seq(1, nrow(mat), 2), ] mat[seq(1, nrow(mat), 3), ] mat[seq(1,

Re: [R] plot.lm cex.caption

2009-04-29 Thread HighSchool2005
Thank you very much again. Now I just need to find out how to update R on Ubuntu with only aptitude available. haha! Martin Maechler-4 wrote: H == HighSchool2005 gemeaux...@yahoo.fr on Tue, 28 Apr 2009 06:29:07 -0700 (PDT) writes: H Hello dear R users, H My objective is

[R] Help me about data.frame

2009-04-29 Thread 풍이
Hi. I have some problem so, I want you to help me. I have to classify some data, and show the result as plot diagram to my boss. I decide to use plsr function in pls package to analysis that. My data are some similar oliveoli data in that package. so, I make my data

Re: [R] The .tex version of the manual in foo.Rcheck

2009-04-29 Thread Uwe Ligges
Bendix, you can also take a source package an run R CMD Rd2dvi --no-clean packageName on it and you will get a temporary directory with the TeX sources in it. Best wishes, Uwe BXC (Bendix Carstensen) wrote: In version 2.8.1, running Rcmd check on the package foo would leave the file

[R] estimate alpha beta for gamma

2009-04-29 Thread Roslina Zakaria
Hi R-users, I'm not sure what's wrong and how do I check the error? I have 3 sets of data aug_dt1  [1]  22.8  49.6  77.9  67.6  91.2  48.9 124.6  54.6  85.8  62.8  63.3 174.7  32.3  22.7  99.9 123.2   4.8 149.0  66.0 [20]  73.9  37.4  22.4  69.5  87.3  66.9  87.2  81.5 109.1  47.4  22.8 

Re: [R] RweaveHTML (R2HTML) Help

2009-04-29 Thread David Hajage
Hello Derek, Unfortunately, I can't help you with R2HTML. But if you want to generate html output of R commands, you could also try ascii package http://eusebe.github.com/ascii/ (available on CRAN). Here an example file (example.Rnw, with asciidoc http://www.methods.co.nz/asciidocmarkup) :

Re: [R] send command to other program

2009-04-29 Thread Jim Lemon
thoeb wrote: Hello, does anybody know about how to send a command or a text line from R to another program? I have written a script in which several calculations are made and outputfiles (csv) are generated. Afterwards I open another program (Fortran) via shell.exec. This program asks for the

Re: [R] send command to other program

2009-04-29 Thread jgarcia
Hi, Consider also that you may easily modify system names from inside your R script as: system(mv oldname newname) Best Regards, Javier ... thoeb wrote: Hello, does anybody know about how to send a command or a text line from R to another program? I have written a script in which several

[R] legend with small colored boxes

2009-04-29 Thread Christophe Dutang
Hi all, I tried to a nice legend with small boxes filled with the colors used for the plots. But it does nor work, boxes are always filled with black. An example is here plot(1:4,1:4) lines(1:4,4:1, col=blue) legend(top,leg=c(a,b),col=c(black,blue), fill=TRUE) How could I specify the colors?

Re: [R] legend with small colored boxes

2009-04-29 Thread Cuvelier Etienne
Christophe Dutang a écrit : Hi all, I tried to a nice legend with small boxes filled with the colors used for the plots. But it does nor work, boxes are always filled with black. An example is here plot(1:4,1:4) lines(1:4,4:1, col=blue) #try something like this

Re: [R] send command to other program

2009-04-29 Thread Wacek Kusnierczyk
Jim Lemon wrote: thoeb wrote: Hello, does anybody know about how to send a command or a text line from R to another program? I have written a script in which several calculations are made and outputfiles (csv) are generated. Afterwards I open another program (Fortran) via shell.exec. This

Re: [R] correlation coefficient

2009-04-29 Thread Jim Lemon
Dieter Menne wrote: Bert Gunter gunter.berton at gene.com writes: Martin's reply provides an appropriate response, so nothing to add. But my questions dig deeper: Why do so many (presumably nonstatisticians, but ?) belong to this R^2 religion? Is it because: 1) This is what they are taught

Re: [R] legend with small colored boxes

2009-04-29 Thread Jim Lemon
Christophe Dutang wrote: Hi all, I tried to a nice legend with small boxes filled with the colors used for the plots. But it does nor work, boxes are always filled with black. An example is here plot(1:4,1:4) lines(1:4,4:1, col=blue) legend(top,leg=c(a,b),col=c(black,blue), fill=TRUE) How

[R] Re : legend with small colored boxes

2009-04-29 Thread Olivier ETERRADOSSI
Hi Christophe, just try : legend(top,leg=c(a,b),fill=c(black,blue)) instead of your : legend(top,leg=c(a,b),col=c(black,blue), fill=TRUE) Regards, Olivier -- Olivier ETERRADOSSI Maître-Assistant CMGD / Equipe Propriétés Psycho-Sensorielles des Matériaux Ecole des Mines d'Alès Hélioparc, 2

Re: [R] correlation coefficient

2009-04-29 Thread Dieter Menne
Dieter Menne dieter.menne at menne-biomed.de writes: q(paper) = 10* n(pvalues) + 5*n(R^2) + 3.5*n(Error Bars) Values above 300 qualify for immediate acceptance, and Journals like Lancet, New English and British Journal of XXX provide professional advice. I noted the and was misleading.

[R] reading csv file : blanks

2009-04-29 Thread Nattu
Hi, I have a comma seperated data file which has blanks in it. I am trinying to import it to R using data1-read.csv(oa_2006.csv, header = TRUE, sep = ,, quote=\, dec=.) I want the missing values to be NA. instead R reads them as U. Any idea why this happens ? Thanks in advance. Regards,

Re: [R] selecting ith rows of a matrix

2009-04-29 Thread Philipp Pagel
On Wed, Apr 29, 2009 at 01:58:06PM +0530, Umesh Srinivasan wrote: Hi all, If I have a huge matrix/ dataframe and I want to create a new matrix/ dataframe with every second (or third, or fourth etc.) row of the original matrix, how can I do it? Any help much appreciated. Others ahve already

[R] combine_factor to empty level

2009-04-29 Thread HEREMANS ROBBIE
ID: T8dfe471e360ac80264c6c Dear, I'm using R 2.8.1 with the package reshape version 0.8.2 . It seems that the combine_factor function has problems with combining levels to an empty level: #EXAMPLE WORKING test-sample(c(1:10),1000,replace=T) testf-factor(test, c(1:10), LETTERS[1:10])

[R] how to word-wrap text in labels in plots?

2009-04-29 Thread Hans Ekbrand
c - structure(c(2L, 2L, 1L, 3L, 4L, 2L, 3L, 2L, 3L, 2L, 5L), .Label = c(foo, + bar, a really really long variable label mostly here to show the need of word-wrapping text in labels, + a not so important value, baz), class = factor) plot(c) Is there a way to get the long variable labels to

Re: [R] legend with small colored boxes

2009-04-29 Thread Christophe Dutang
I thought I have tried to pass a vector of colors and that it did not work.. Thanks for all! Christophe Le 29 avr. 09 à 12:16, Jim Lemon a écrit : Christophe Dutang wrote: Hi all, I tried to a nice legend with small boxes filled with the colors used for the plots. But it does nor

Re: [R] problem with symbol function

2009-04-29 Thread Duncan Murdoch
Christophe Dutang wrote: Based on your solution, could we not fix this issue for the symbol function? Sure, send a patch. Duncan Murdoch Le 27 avr. 09 à 23:47, Duncan Murdoch a écrit : On 27/04/2009 5:23 PM, Christophe Dutang wrote: so it could be a limitation of graphics on

Re: [R] The .tex version of the manual in foo.Rcheck

2009-04-29 Thread Berwin A Turlach
G'day Uwe, On Wed, 29 Apr 2009 11:03:43 +0200 Uwe Ligges lig...@statistik.tu-dortmund.de wrote: you can also take a source package an run R CMD Rd2dvi --no-clean packageName on it and you will get a temporary directory with the TeX sources in it. Which is fine for manual processing and

Re: [R] Problem with survival

2009-04-29 Thread Frank E Harrell Jr
Terry Therneau wrote: It is likely a problem with survival, since 2.9 merged in a large number of changes that had occured in my source tree that had not propogated to the R tree my test suite doesn't have a test for this particular case (2 factors) and -

Re: [R] how to word-wrap text in labels in plots?

2009-04-29 Thread Eik Vettorazzi
Hi Hans, strwrap is your friend. \n inserts a cr in a line of text. wordwrap-function(x,len) paste(strwrap(x,width=len),collapse=\n) par(mar=c(11,3,2,1)) tmp-plot(c,axes=F) axis(2) axis(1,at=tmp,labels=sapply(levels(c),wordwrap,len=15),padj=1) box() For unique abbreviations see ?abbreviate

Re: [R] how to word-wrap text in labels in plots?

2009-04-29 Thread Jim Lemon
Hans Ekbrand wrote: c - structure(c(2L, 2L, 1L, 3L, 4L, 2L, 3L, 2L, 3L, 2L, 5L), .Label = c(foo, + bar, a really really long variable label mostly here to show the need of word-wrapping text in labels, + a not so important value, baz), class = factor) plot(c) Is there a way to get the long

Re: [R] reading csv file : blanks

2009-04-29 Thread Jim Lemon
Nattu wrote: Hi, I have a comma seperated data file which has blanks in it. I am trinying to import it to R using data1-read.csv(oa_2006.csv, header = TRUE, sep = ,, quote=\, dec=.) I want the missing values to be NA. instead R reads them as U. Any idea why this happens ? Hi Nataraju,

Re: [R] correlation coefficient

2009-04-29 Thread Peter Flom
Dieter Menne dieter.me...@menne-biomed.de wrote I noted the and was misleading. Read: Good journals like Lancet, New English and many British Journal of XXX really help you to do better. I am one of the statistical editors for PLoS Medicine, and I try to help people do better; often, the

Re: [R] Newbie R question PART2

2009-04-29 Thread Stefan Evert
the little r comes from littler [1]. it doesn't claim to be larger than it is. [1] http://dirk.eddelbuettel.com/code/littler.html Unless you're working on a Mac or Windows (if I'm not mistaken about case handling there), where it will just overwrite the standard R interpreter. :-(

Re: [R] Newbie R question PART2

2009-04-29 Thread Ista Zahn
Hi Tena, I recommend rapache for building websites with R. See http://biostat.mc.vanderbilt.edu/rapache/ -Ista -- Forwarded message -- From: Tena Sakai tsa...@gallo.ucsf.edu To: ted.hard...@manchester.ac.uk, r-help@r-project.org Date: Tue, 28 Apr 2009 15:04:53 -0700 Subject:

[R] Mailinglist; get a copy of all own messages

2009-04-29 Thread Martin Batholdy
Hi, I tried to change my settings of the mailing-list, so that I get my own message again from the mailing-list. But it doesn't work - I don't get a copy of my own email. Does anyone know how you can change that? thanks for any help! __

[R] modified Struve functions

2009-04-29 Thread Ranjan Maitra
Dear all, Is there an R package which calculates the modified Struve function (StruveL)? I was not able to find anything apt with a RSiteSearch so it does not appear to have been asked in the list. Many thanks and best wishes, Ranjan __

Re: [R] Mailinglist; get a copy of all own messages

2009-04-29 Thread Sarah Goslee
It's gmail, not the mailing list. Gmail stores your mailing list messages under Sent mail and I at least haven't found any way to convince it to filter them or store them elsewhere. If you reply to an earlier message, your reply should appear in the proper place, but there doesn't seem to be any

Re: [R] reading csv file : blanks

2009-04-29 Thread Dimitri Liakhovitski
When you read in a .csv file with some empty cells using read.csv, there is no need to specify anything - empty cells will be recorded as NAs automatically: try: data1-read.csv(oa_2006.csv) Dimitri On Wed, Apr 29, 2009 at 7:54 AM, Jim Lemon j...@bitwrit.com.au wrote: Nattu wrote: Hi, I

Re: [R] correlation coefficient

2009-04-29 Thread Dimitri Liakhovitski
Just another opinion about R^2 coming from the field of US Psychology research and business: The first and foremost technique taught in Psychology Departments in subfields where experimental designs are rarely possible (i.e., social psychology, personality psychology, developmental psychology,

[R] boxplot - margin settings

2009-04-29 Thread Antje
Hi there, I'm trying to solve a boxplot problem (should be simple, but I cannot find the solution...): data - list(long_name1_xxx = rnorm(100), long_name2_yy = rnorm(200)) boxplot(data , las = 2, mar = c(20,4,4,4)) Why does the margin not change

Re: [R] how to word-wrap text in labels in plots?

2009-04-29 Thread Hans Ekbrand
Thanks to Jim and Eik! I really appreciate your help, and I think can use your suggestions and perhaps write a wrapper for plot that integrates them. -- Hans Ekbrand (http://sociologi.cjb.net) h...@sociologi.cjb.net Q. What is that strange attachment in this mail? A. My digital signature, see

[R] Help with RExcel (running code)

2009-04-29 Thread benn fine
Hello: First, RExcel completely rocks! Hat tip to the development team. However, I don't understand something very basic about it. Suppose I put the following code in two cells and choose the Run Code option plot(runif(20),runif(20)) text(.5,.5,Hello) I get the expected plot. HOWEVER, if I

Re: [R] boxplot - margin settings

2009-04-29 Thread Sarah Goslee
boxplot() isn't passing extra parameters in the way you'd expect. If you set par() first, it works fine. mar.orig - par()$mar # save the original values par(mar = c(20,4,4,4)) # set your new values boxplot(data, las = 2) par(mar = mar.orig) # put the original values back Sarah On Wed, Apr 29,

[R] if condition doesn't evaluate to True/False

2009-04-29 Thread Moumita Das
Hi friends, Please help me with this bug. *Bug in my code:* In this variable sub_grp_whr_cls_data[sbgrp_no,1] I store the where clause.every sub group has a where condition linked with it. Database1 Where clause was not found for a particular subgroup, sub_grp_whr_cls_data[sbgrp_no,1]

Re: [R] boxplot - margin settings

2009-04-29 Thread Antje
I knew the solution would be kind of simple... Thanks a lot, Sarah! Sarah Goslee schrieb: boxplot() isn't passing extra parameters in the way you'd expect. If you set par() first, it works fine. mar.orig - par()$mar # save the original values par(mar = c(20,4,4,4)) # set your new values

Re: [R] Mailinglist; get a copy of all own messages

2009-04-29 Thread Sarah Goslee
Even if you have the mailing list options set so that you are sent copies of your own posts, gmail hides them for you. http://groups.google.com/group/Gmail-Help-Message-Delivery-en/browse_thread/thread/e7716ab04941c383?pli=1 It has nothing to do with the mailing list manager. The original

[R] Kolmogorov-Smirnov test

2009-04-29 Thread mathallan
I got a distribution function and a empirical distribution function. How do I make to Kolmogorov-Smirnov test in R. Lets call the empirical distribution function Fn on [0,1] and the distribution function F on [0,1] ks.test( ) thanks for the help -- View this

Re: [R] The .tex version of the manual in foo.Rcheck

2009-04-29 Thread Uwe Ligges
Berwin A Turlach wrote: G'day Uwe, On Wed, 29 Apr 2009 11:03:43 +0200 Uwe Ligges lig...@statistik.tu-dortmund.de wrote: you can also take a source package an run R CMD Rd2dvi --no-clean packageName on it and you will get a temporary directory with the TeX sources in it. Which is fine

Re: [R] if condition doesn't evaluate to True/False

2009-04-29 Thread ml-r-help
see ?is.null e.g. if( is.null(sub_grp_whr_cls_data[sbgrp_no, 1]) ) { your code } Moumita Das wrote: Hi friends, Please help me with this bug. *Bug in my code:* In this variable sub_grp_whr_cls_data[sbgrp_no,1] I store the where clause.every sub group has a where condition linked with

[R] Odp: if condition doesn't evaluate to True/False

2009-04-29 Thread Petr PIKAL
Hi you put your problem in absolutely messy state r-help-boun...@r-project.org napsal dne 29.04.2009 16:16:55: Hi friends, Please help me with this bug. *Bug in my code:* In this variable sub_grp_whr_cls_data[sbgrp_no,1] I store the where clause.every sub group has a where condition

Re: [R] Kolmogorov-Smirnov test

2009-04-29 Thread Andrew Dolman
help.search(kolmogorov) ?ks.test andydol...@gmail.com 2009/4/29 mathallan mathanm...@gmail.com I got a distribution function and a empirical distribution function. How do I make to Kolmogorov-Smirnov test in R. Lets call the empirical distribution function Fn on [0,1]

Re: [R] Kolmogorov-Smirnov test

2009-04-29 Thread Richardson, Patrick
This is the third homework question you have asked the list to do for you. How many more should we expect? The posting guide is pretty clear in that: Basic statistics and classroom homework: R-help is not intended for these. -Original Message- From: r-help-boun...@r-project.org

Re: [R] if condition doesn't evaluate to True/False

2009-04-29 Thread Petr PIKAL
Hi r-help-boun...@r-project.org napsal dne 29.04.2009 17:05:01: see ?is.null e.g. if( is.null(sub_grp_whr_cls_data[sbgrp_no, 1]) ) { your code } It probably will not work as sub_grp_whr_cls_data[sbgrp_no,1]==NULL implicates that there is character value NULL. I am not sure if you

[R] what happens if a function removes an external (global) variable ?

2009-04-29 Thread mauede
My program consists of a number of functions and a main script. It loops through many time series analyzing one at a time. I have declared a number of arrays and scalar variables in the main script namespace (using C++ terminology) because those data structures ar shared by many functions.

Re: [R] if condition doesn't evaluate to True/False

2009-04-29 Thread Bert Gunter
test - list(NULL) Bert Gunter Nonclinical Biostatistics 467-7374 -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Petr PIKAL Sent: Wednesday, April 29, 2009 8:21 AM To: ml-r-h...@epigenomics.com Cc:

Re: [R] if condition doesn't evaluate to True/False

2009-04-29 Thread ml-r-help
Petr PIKAL wrote: Hi r-help-boun...@r-project.org napsal dne 29.04.2009 17:05:01: see ?is.null e.g. if( is.null(sub_grp_whr_cls_data[sbgrp_no, 1]) ) { your code } It probably will not work as sub_grp_whr_cls_data[sbgrp_no,1]==NULL implicates that there is character value

Re: [R] Newbie R question PART2

2009-04-29 Thread Martin Morgan
Tena Sakai wrote: Hi, Many thanks to Wacek Kusnierczyk and Ted Harding. I learned 3 new tricks. (Not bad for a newbie?) $ R --silent --no-save barebone.R $ R --quiet --no-save barebone.R $ R --slave barebone.R With slight differences, they all do what I wanted. Moving

[R] Installing/using glars package --- Error in library(glars) : 'glars' is not a valid installed package

2009-04-29 Thread lara harrup (IAH-P)
Hi all I seem to have fallen at the first hurdle with my analysis, I have a set of binary disease outbreak data linked to a large number of landscape metrics variables and environmental variables which I would like to as predictor variables in a Least Angle Logistic Regression using the

[R] trouble with rgl on opensuse 11.1

2009-04-29 Thread Erin Hodgess
Dear R People: I upgraded to Open Suse 11.1 and am having trouble with the rgl package, which I need for other applications. Here is the install output: install.packages(rgl,depen=TRUE) --- Please select a CRAN mirror for use in this session --- Loading Tcl/Tk interface ... done trying URL

[R] How do I sample cases within a matrix?

2009-04-29 Thread Silvia Lomascolo
Hi R community, I am trying to obtain a sample from a matrix but sample(my.matrix) doesn't do what I need. I have a matrix of 1287 interactions between the species in columns and the species in rows and I want to obtain a smaller matrix with say, 800 interactions, that may or may not have the

Re: [R] Out of memory issue

2009-04-29 Thread Thomas Lumley
On Tue, 28 Apr 2009, Neotropical bat risk assessments wrote: Hi again all, I can read all of the data is in CSV format with a header row and with 1,200,240 rows. I can do all the plots and ggplot2 has no problems. Seems to be a problem with the MASS package??? It seems that the

Re: [R] Bounded memory ANOVA

2009-04-29 Thread Thomas Lumley
If it is a fixed-effects ANOVA you can just use biglm(). Otherwise you could use biglm() to fit the necessary sequences of models to give the RSS that you need for the F-tests. -thomas On Tue, 28 Apr 2009, Hardi wrote: Hi, I'm using aov() to analyze the data and get the rank of

[R] Normal distribution with R

2009-04-29 Thread guox
If we knew two pth quantiles for a normal distribution, is it possible that we can find mean and sigma for the normal distribution using R? Let x ~ norm(mean, sigma). Suppose that qnorm(0.9,mean,sigma) and qnorm(0.1,mean,sigma) are known. Can we find mean and sigma using R? Thanks, -james

Re: [R] How do I sample cases within a matrix?

2009-04-29 Thread jim holtman
If you just want to shuffle the row around, this should do it. By limiting the number of samples, you can get a smaller matrix: pla- c(10, 9, 6, 5, 3) #abundance of pla species pol- c(14, 10, 9, 4, 2) #abundance of pol species m-pla%*%t(pol) #matrix of interactions m[sample(nrow(m)),]

[R] 2 way ANOVA with possible pseudoreplication

2009-04-29 Thread nat_h
Hi, I have an experiment with 2 independant factors which I have been trying to analyse in R. The problem is that there are several data points recorded on the same animal. However, no combination of treatments is repeated on the same animal. All possible combinations of treatments are done in

[R] Re sidual variance in lmer

2009-04-29 Thread tomal
Hello everybody, using the lmer function, I have fitted the following logistic mixed regression model on an experimental data set containing one fixed factor (Cond) and three random variables (Sito, Area, Trans): model-lmer(Caul~Cond+(1|Sito)+(1|Area)+(1|Trans), data=dataset,

Re: [R] problems with clipboard

2009-04-29 Thread Jamie.lannister
Thank you very much. I'll try. Jamie Kevin Middleton-3 wrote: Jamie, Try it as: data2 - read.table(pipe('pbpaste'), header = T) I have a read.clipboard() function defined in ~/.Rprofile: read.clipboard - function(){read.table(pipe('pbpaste'), header = T)} Also see the

[R] library which convert dates

2009-04-29 Thread Grześ
I'm looking for library which let mi convert dates for example like this: 00-06-05 00:00 00-08-06 00:00 00-08-16 00:00 00-05-23 00:00 00-01-14 00:00 00-10-28 00:00 and as a result I want to get a 3 levels -- View this message in context:

Re: [R] problems with clipboard

2009-04-29 Thread Jamie.lannister
Thank you very much! See, I'm a new user both for R and mac.. :-) Jamie. Prof Brian Ripley wrote: On Tue, 28 Apr 2009, Jamie.lannister wrote: Hi I'm a mac user. I have problems loading data from mac excel in R. I'm using these script: library(utils) data2 -

[R] How do I sample cases within a matrix?

2009-04-29 Thread Silvia Lomascolo
Hi R community, I am trying to obtain a sample from a matrix but sample(my.matrix) doesn't do what I need. I have a matrix of 1287 interactions between the species in columns and the species in rows and I want to obtain a smaller matrix with say, 800 interactions, that may or may not have the

[R] Optim and hessian

2009-04-29 Thread Marcel Rodrigues Lopes
Hi, my name is Marcel R. Lopes. My problem is, I made a code to calculate the estimates of a Cox model with random effects. Used to optimize the R command for this. The estimates were calculated correctly, but the Hessian matrix does not have good values. The same thing was done in SAS and gave

[R] mode(x) - double

2009-04-29 Thread aledanda
Hi, I need your help!! I imported a big coloumn vector from a txt file but it results as mode :list I want to change it in numeric otherwise I can't do my analysis. This is what i get: mode (data) - double Error in eval(expr, envir, enclos) : (list) object cannot be coerced to type 'double'

[R] AICc

2009-04-29 Thread Katie Stumpf
I am fitting logistic regression models, by defining my own link function, and would like to get AICc values. Using the glm command gives a value for AIC, but I haven't been able to get R to convert that to AICc. Is there a code that has already been written for this? Right now I am

[R] Selecting vector elements using other vectors

2009-04-29 Thread 00alastair00
Dear R-Help, I have a data frame and a vector df=data.frame(Letter=c(Z,Q,R,A,E,F), Number=c(11,32,4,1,9,3)) v=c(C,Q,R,A,E) From df, I'd like to construct a subset of the field Number, with deletions dictated by the vector, v, of letters. I've succeeded in doing this for a single deletion (for

[R] Error with Design.Function(fit)

2009-04-29 Thread x
Hi all, I'm reposting this with a more appropriate subject. Do I need to define limits as the error message seems to suggest? If so, how? The error message, my code, the output and the first few lines of my data are all below. Thank you! Error in Getlim(at, allow.null = TRUE, need.all =

Re: [R] library which convert dates

2009-04-29 Thread stephen sefick
look at zoo and chron On Wed, Apr 29, 2009 at 8:54 AM, Grześ gregori...@gmail.com wrote: I'm looking for library  which let mi convert dates for example like this: 00-06-05 00:00 00-08-06 00:00 00-08-16 00:00 00-05-23 00:00 00-01-14 00:00 00-10-28 00:00 and as a result I want to get a

[R] Dynamic visualisation of R data using Adobe FLEX

2009-04-29 Thread Harsh
Hi useRs, I had posted about Adobe FLEX talking to R for rich visualisation. Reply from Jeffery Horner contained links to the revolution-computing.com webpage which had information pertaining to the Bay Users R group Meetup on Web Dashboards with R. I have a very specific project that I need to

[R] RODBC inside MS Access Sub

2009-04-29 Thread Felipe Carrillo
HI: Is it possible to use the RODBC package within MS Access. I have been using from R but was just wondering if it could be used along with R(D)COM. Something like this: Dim dbs As DAO.Database Dim rst As DAO.Recordset Dim myApp As StatConnector Set myApp = New StatConnector

Re: [R] Normal distribution with R

2009-04-29 Thread Eik Vettorazzi
Hi James its just simple calculus, since with q90-qnorm(.9,me,sd) q10-qnorm(.1,me,sd) mean-(q90+q10)/2# the normal distribution is symmetric around the mean sd-(q90-q10)/ (qnorm(.9)-qnorm(.1)) # between 10th and 90th are qnorm(.9)-qnorm(.1)=2.563103sds hth. g...@ucalgary.ca schrieb: If

[R] Evaluation of an expression as function argument

2009-04-29 Thread Sebastien Bihorel
Dear R-users, I would like to know if is it possible to set a function argument as an evaluated expression. I have tried several syntaxes, including the following example, but could not get it anything to run. The plot function is used here but I would like to later apply the same approach

Re: [R] Optim and hessian

2009-04-29 Thread Ravi Varadhan
Are you using optim() function in R? Although I am not sure what your problem really is (as you haven't provided sufficient information), it may be that the hessian computation in optim() is not accurate enough for you. Try the function hessian() in the numDeriv package. It is very accurate.

[R] arma model with garch errors

2009-04-29 Thread Joseph Magagnoli
Dear R experts, I am trying to estimate an ARMA 2,2 model with garch errors. I used the following code on R 2.9. #library library(fGarch) #data data1-ts(read.table(C:/Users/falcon/Desktop/Time Series/exports/goods1.csv), start=c(1992,1), frequency=12) head(data1) #garch garchFit(formula.mean=

[R] help converting for loop to vector operation

2009-04-29 Thread Avram Aelony
Dear List, I have a wrapper function that draws a graph that I'd like to use in a vector-like manner. The for-loop version I currently use is below. library(ggplot2) data(economics) h - 600 w - 800 #-- draw_metric_by_date - function(

[R] Hierarchical Diagram of Networks in sna or otherwise?

2009-04-29 Thread jebyrnes
I've been using sna to work with some networks, and am trying to visualize them easily. My networks are hierarchical (food webs). All of the layout engines I've tried with gplot don't seem to plot hierarchical networks, as one would using dot from graphviz. While I could do all of this by

Re: [R] Newbie R question PART2

2009-04-29 Thread Tena Sakai
Hi, Thank you for littler webpage. It is quite interesting. Tena Sakai tsa...@gallo.ucsf.edu -Original Message- From: Wacek Kusnierczyk [mailto:waclaw.marcin.kusnierc...@idi.ntnu.no] Sent: Wed 4/29/2009 1:22 AM To: Tena Sakai Cc: r-h...@stat.math.ethz.ch Subject: Re: [R] Newbie R

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