[R] Partial correlation coefficients Type I, Type II

2009-09-29 Thread Harold Pimentel
Hi all, This message is in response to: http://www.mail-archive.com/r-h...@stat.math.ethz.ch/msg93690.html Basically, in SAS you can retrieve the partial correlation coefficients using: proc reg data = ch11q02; model y = x1 x2/pcorr1 pcorr2; run; quit; Is there a comparable way to retrieve

[R] Data Step: Outer Join Rows, Inner Join Columns

2009-09-29 Thread schimpanski
Hi, how can I do a data step in R which can be best described in SQL terminology as an outer join of rows (eg cases) and inner join of columns (variables)? In case of conflicting non-missing values the first dataset has higher always priority. Missing values should always be replaced by valid

Re: [R] re trieve user input from an tcl/tk interface

2009-09-29 Thread jverzani
einsundeins floriansense at gmail.com writes: Hello everyone, this is my first post here and I hope I signed up correctly and someone will take me by the hand and help me out. I am new to R and cannot figure out what to do here... ... I want to have an User Interface that requests

Re: [R] A programming question - is what I want to do possible in R?

2009-09-29 Thread ewaters
Thanks for your help. Unfortunately when I try it this generates an error as follows: randomSamples-lapply(1:2000,function(){ + meta_comp[sample(nrow(meta_comp),nTimes),]}) Error in FUN(1:2000[[1L]], ...) : unused argument(s) (1:2000[[1]]) jholtman wrote: nTime - 15 # how many samples

Re: [R] Data Step: Outer Join Rows, Inner Join Columns

2009-09-29 Thread Christian Schulz
Hi, if you like to use sql you can use the sqldf package. Another possibility is the basic function merge. HTH Christian Hi, how can I do a data step in R which can be best described in SQL terminology as an outer join of rows (eg cases) and inner join of columns (variables)? In

[R] Something wrong with my function Please Help

2009-09-29 Thread Chunhao Tu
Hi R users, I try to build a function to compute odds ratio and relative risk however something wrong. I stuck for many hours but I really don't know how to solve it. Would someone please give me a hint? OR.RR-function(x){ + x - as.matrix(any(dim(x)==2)) +

Re: [R] Something wrong with my function Please Help

2009-09-29 Thread Barry Rowlingson
On Tue, Sep 29, 2009 at 4:29 AM, Chunhao Tu tu_chun...@yahoo.com wrote: Hi R users, I try to build a function to compute odds ratio and relative risk however something wrong. I stuck for many hours but I really don't know how to solve it. Would someone please give me a hint?

Re: [R] Something wrong with my function Please Help

2009-09-29 Thread Paul Hiemstra
Chunhao Tu wrote: Hi R users, I try to build a function to compute odds ratio and relative risk however something wrong. I stuck for many hours but I really don't know how to solve it. Would someone please give me a hint? OR.RR-function(x){ + x - as.matrix(any(dim(x)==2)) +

Re: [R] Something wrong with my function Please Help

2009-09-29 Thread Corrado
Did you run debug over your function? Load the library debug, and then run mtrace over your function. library(debug) ? mtrace hth On Tuesday 29 September 2009 04:29:37 Chunhao Tu wrote: Hi R users, I try to build a function to compute odds ratio and relative risk however something wrong. I

[R] some simple questions regarding survival analysis

2009-09-29 Thread Dmitry Gospodaryov
I have two types of survival data for Drosophila cohort. For example: uncensored age - c (0, 2, 4, 6, 8, 10) alive1 - c(10, 9, 6, 3, 1, 0) alive 2 - c(10, 9, 4, 1, 1, 0) and censored age - c(0, 2, 4, 6, 8, 10) alive1 - c(10, 8, 3, 1, 1, 0) escaped1 - c(0, 1, 1, 0, 0, 0) alive2 - c(10, 7,

Re: [R] plot error -- figure margins too large

2009-09-29 Thread Uwe Ligges
Ping-Hsun Hsieh wrote: Hi, I am trying to plot my dataset, consisting of one column with numeric values and one column with group IDs. The set is similar to the following df. df - NULL for ( i in 1:20) { tmp1 - runif(1000,0,5) tmp2 - cbind(tmp1,i) df - rbind(df,tmp2) } Now I would

Re: [R] Something wrong with my function Please Help

2009-09-29 Thread Jim Lemon
On 09/29/2009 01:29 PM, Chunhao Tu wrote: Hi R users, I try to build a function to compute odds ratio and relative risk however something wrong. I stuck for many hours but I really don't know how to solve it. Would someone please give me a hint? OR.RR-function(x){ + x-

Re: [R] Running an ANOVA with a BY

2009-09-29 Thread xavier . chardon
Or with plyr there's a more flexible approach: res.aov - dlply(warpbreaks, .(tension), function(x) aov(breaks ~ wool, data=x)) # aov results are stored in a list, you can directly extract what you want with l*ply l_ply(res.aov, function(x) print(summary(x))) ldply(res.aov, function(x)

Re: [R] error while plotting

2009-09-29 Thread Uwe Ligges
Nair, Murlidharan T wrote: -Original Message- From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de] Sent: Sunday, September 27, 2009 1:17 PM To: Nair, Murlidharan T Cc: r-help@r-project.org Subject: Re: [R] error while plotting Nair, Murlidharan T wrote: I am getting the

[R] sort dates within a factor

2009-09-29 Thread Stefan Uhmann
Dear List, I have the following data: test - data.frame(date = as.Date(c('2007-01-01','2008-03-24','2003-03-02','2008-05-03','2002-05-23','2001-06-30','2005-12-04')), nr = c(2000,2000,2000,2001,2002,2003,2003)) test date nr 1 2007-01-01 2000 2 2008-03-24 2000 3 2003-03-02

[R] time series and ACF

2009-09-29 Thread Kon Knafelman
Hey guys, im sort of a beginner with R, but here's what i need to do. i need to perform a time series analysis on a set of financial data that i've been given. im trying to look at the ACF and PACF and fit it to a particular model (i think its the ARIMA model because i've read that financial

[R] fft with NA values

2009-09-29 Thread Steve Jones
Hi List, I'm trying to perform some spectral analysis on a time series, but I've got a few data points missing, so they have NA values. Unfortunately, the fft function doesn't seem to like this, and gives a completely empty result. Other than making up values to fill in the gaps, is there any

[R] Cannot allocate memory of size x on Linux - what's the solution?

2009-09-29 Thread davew0000
Hi all, I'm running an analysis with the random forest tool. It's being applied to a data matrix of ~60,000 rows and between about 40 and 200 columns. I get the same error with all of the data files (Cannot allocate vector of size 428.5MB). I found dozens of threads regarding this problem, but

[R] preformatted and '#' in manual pages

2009-09-29 Thread Gábor Csárdi
Dear All, I have the following in a .Rd file: ... human readable (not binary) format. The format itself is like the following: \preformatted{ \# vertex1name vertex2name [optionalWeight] vertex3name [optionalWeight] } Here, the first vertex of

Re: [R] sort dates within a factor

2009-09-29 Thread xavier . chardon
Is this what you want? test[order(test$nr, -as.integer(test$date)),] Xavier - Mail Original - De: Stefan Uhmann stefan.uhm...@googlemail.com À: r-help@r-project.org Envoyé: Mardi 29 Septembre 2009 11h27:20 GMT +01:00 Amsterdam / Berlin / Berne / Rome / Stockholm / Vienne Objet: [R]

[R] Create column of frequency

2009-09-29 Thread abdul kudus
Dear all, Given mypi mypi - c(0.1,0.2,0.2,0.1,0.3,0.4,0.4,0.4,0.4,0.2) I want to create myfreq as follows mypi myfreq 0.1 2 0.2 3 0.2 3 0.1 2 0.3 1 0.4 4 0.4 4 0.4 4 0.4 4 0.2 3 where myfreq is frequency of its corresponding observation. How to do that? Thank you, Regards, A. Kudus

[R] Probability of data values form empirical distribution

2009-09-29 Thread Lina Rusyte
Hello,   Could someone help me please and to tell how to get the probability from empirical distribution (not parametric) for each data value (R function). For example, for normal distribution there is such a function like:   “pnorm(q, mean = 0, sd = 1, lower.tail = TRUE, log.p = FALSE)”  

[R] Comparing regression lines

2009-09-29 Thread Marcin Kozak
Hi, How would you compare several (simple) regression lines in R? Have you heard of any implementation of the Johnson-Neyman procedure or anything of this sort? Any suggestions? Best, Marcin __ R-help@r-project.org mailing list

Re: [R] Create column of frequency

2009-09-29 Thread Chuck Cleland
On 9/29/2009 6:06 AM, abdul kudus wrote: Dear all, Given mypi mypi - c(0.1,0.2,0.2,0.1,0.3,0.4,0.4,0.4,0.4,0.2) I want to create myfreq as follows mypi myfreq 0.1 2 0.2 3 0.2 3 0.1 2 0.3 1 0.4 4 0.4 4 0.4 4 0.4 4 0.2 3 where myfreq is frequency of its corresponding

Re: [R] some simple questions regarding survival analysis

2009-09-29 Thread johannes rara
2) See packages Epi and epitools -Johannes 2009/9/29 Dmitry Gospodaryov gospodar...@rambler.ru: I have two types of survival data for Drosophila cohort. For example: uncensored age - c (0, 2, 4, 6, 8, 10) alive1 - c(10, 9, 6, 3, 1, 0) alive 2 - c(10, 9, 4, 1, 1, 0) and censored age -

Re: [R] Cannot allocate memory of size x on Linux - what's the solution?

2009-09-29 Thread Uwe Ligges
davew wrote: Hi all, I'm running an analysis with the random forest tool. It's being applied to a data matrix of ~60,000 rows and between about 40 and 200 columns. I get the same error with all of the data files (Cannot allocate vector of size 428.5MB). I found dozens of threads

Re: [R] preformatted and '#' in manual pages

2009-09-29 Thread Uwe Ligges
From Writing R Extensions: ‘#’, ‘_’ and ‘’ must not be escaped. Uwe Ligges Gábor Csárdi wrote: Dear All, I have the following in a .Rd file: ... human readable (not binary) format. The format itself is like the following: \preformatted{ \# vertex1name

Re: [R] sort dates within a factor

2009-09-29 Thread Stefan Uhmann
Hi Xavier, thank you for your suggestion, it's not exactly what I need. However I made some progress using tapply, but it does not give me the 'correct' result (see index - that's what I want to obtain!) when NAs are involved: test - data.frame(date =

Re: [R] preformatted and '#' in manual pages

2009-09-29 Thread Gábor Csárdi
Uwe, thanks, but this does not help, I still get: LaTeX errors when creating PDF version. This typically indicates Rd problems. LaTeX errors found: ! You can't use `macro parameter character #' in vertical mode. argument ...ike the following: \begin {alltt} ##

Re: [R] sort dates within a factor

2009-09-29 Thread xavier . chardon
Apologies for the misunderstanding. I can come up with a solution that might suit your needs: library(plyr) out - ddply(test, .(nr), function(x) data.frame(date=x$date, index=rank(-as.integer(x$date out[is.na(out$nr) | is.na(out$date), index] - NA Xavier - Mail Original - De:

Re: [R] A programming question - is what I want to do possible in R?

2009-09-29 Thread jim holtman
Add a dummy argument to the function: randomSamples-lapply(1:2000,function(dummy){ + meta_comp[sample(nrow(meta_comp),nTimes),]}) On Mon, Sep 28, 2009 at 9:39 PM, ewaters ewat...@nchecr.unsw.edu.au wrote: Thanks for your help. Unfortunately when I try it this generates an error as follows:

[R] C++

2009-09-29 Thread Stefo Ratino
Hello, I have written a C++ code and I would like to use it in R! Is this possible? Many thanks in advance, Stepho [[alternative HTML version deleted]] __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help

Re: [R] [Rd] Probability of data values form empirical distribution

2009-09-29 Thread John Nolan
The function ecdf(x) computes the empirical cdf from data in the vector x. You can plot it with plot(ecdf(x)), or compute the emp. cdf at new values, e.g. my.cdf - ecdf(x) my.cdf( 0:3 ) # computes the emp. cdf at 0,1,2,3 John

Re: [R] C++

2009-09-29 Thread Dirk Eddelbuettel
On Tue, Sep 29, 2009 at 05:27:54AM -0700, Stefo Ratino wrote: Hello, I have written a C++ code and I would like to use it in R! Is this possible? Yes, see e.g. http://cran.r-project.org/package=Rcpp Dirk -- Three out of two people have difficulties with fractions.

Re: [R] R and REST API's

2009-09-29 Thread Gary Lewis
Thanks to all of you who replied. You've provided some great leads. I really appreciate it. Gary On Mon, Sep 28, 2009 at 10:01 AM, Gary Lewis gary.m.le...@gmail.com wrote: Hi - Many organizations now make their data available as XML via a REST web service architecture. Is there any R package

[R] How to parsing data like this in R

2009-09-29 Thread Tammy Ma
Hi, R-users, I met a problem: Items:[Anna 'moi =) akku loppu joskus 4ltä. Kestää kauan nää..'\tAmer, Tuusula (0:20)\t20\t12\t16\t00\t00\t11]/Anne 'Ei jakoa,uus päivä muistio et 4n niin peruin. Hups'\t (0:16)\t0\t12\t18\t00\t00\t11/Elina 'Konsertissa. En tod. vastaa teille'\tEtu-Töölö,

[R] Data source for American college football rankings?

2009-09-29 Thread Douglas Bates
An interesting, and topical, example of multivariate data for classroom illustrations are the American college football rankings. Starting at the end of October (or week 8, the 8th week of the football season) a set of rankings called the BCS (Bowl Championship Series) will be published. This is

Re: [R] Cannot allocate memory of size x on Linux - what's the solution?

2009-09-29 Thread Dave Wood
Thanks for the responses @Patrik Burns I'm going to try running on a 64 bit machine. Unfortunately R isn't installed properly on it yet and our admin guy is away, so it'll have to wait. @ Uwe Ligges Unless the program suddenly starts generating masses and masses of data, I don't think this is

Re: [R] How to parsing data like this in R

2009-09-29 Thread Henrique Dallazuanna
Try this: Str - :[Anna 'moi =) akku loppu joskus 4ltä. Kestää kauan nää..'\tAmer, Tuusula (0:20)\t20\t12\t16\t00\t00\t11]/Anne 'Ei jakoa,uus päivä muistio et 4n niin peruin. Hups'\t (0:16)\t0\t12\t18\t00\t00\t11/Elina 'Konsertissa. En tod. vastaa teille'\tEtu-Töölö, Helsinki

Re: [R] C++

2009-09-29 Thread Steve Lianoglou
On Sep 29, 2009, at 8:39 AM, Dirk Eddelbuettel wrote: On Tue, Sep 29, 2009 at 05:27:54AM -0700, Stefo Ratino wrote: Hello, I have written a C++ code and I would like to use it in R! Is this possible? Yes, see e.g. http://cran.r-project.org/package=Rcpp And section 5 of the Writing R

[R] ggplot2 box plot notches

2009-09-29 Thread stvienna wiener
Dear List, I just googled to find out if notched box plots are possible with ggplot2, but couldn't find a answer to it. boxplot() has the option: notch = TRUE, e.g.: boxplot(mpg$hwy, notch=TRUE) My example code (taken from the net) is: require(ggplot2) qplot(class, hwy, fill=factor(year),

Re: [R] sort dates within a factor

2009-09-29 Thread hadley wickham
On Tue, Sep 29, 2009 at 6:58 AM, xavier.char...@free.fr wrote: Apologies for the misunderstanding. I can come up with a solution that might suit your needs: library(plyr) out - ddply(test, .(nr), function(x) data.frame(date=x$date, index=rank(-as.integer(x$date out[is.na(out$nr) |

[R] Comparing vectors from lists

2009-09-29 Thread Christina Rodemeyer
Hi guys, I still did not solve my problem properly! I have to compare the values of two lists of 250 numbers as a result of using the ?by function! List1 of 250  $ 0   : num [1:28] 22 11 31...  $ 1   : num [1:15] 12 14 9 ... .. .. ..  - attr(*, dim)= int 250  - attr(*, dimnames)=List of 1

[R] overwritten plots in pdf file

2009-09-29 Thread CJ Rubio
i am having a problem in saving plots in pdf. i have this code below and it only shows me the last plot. i tried keeping my devices open by removing dev.off() from the code but the pdf file won't open for (i in 1:n) { . . . pdf(D:/research/plot.pdf) plot(mon, mu, type ='o') dev.off() } my for

[R] Problem installing RMAGEML package

2009-09-29 Thread Mamun Rashid
Hi all, I ran in to a problem while trying to install RMAGEML package. /usr/bin/ld: cannot find -ljava . (please look at the bottom for details of the error) I have set the following in ~/.bashrc file. export JAVA_HOME=/usr/lib/jvm/java-1.6.0-openjdk-1.6.0.0.x86_64 export

[R] Probability of data values form DENSITY function

2009-09-29 Thread Lina Rusyte
Hello,   Could someone help me please and to tell how to get the probability from empirical DENSITY (not parametric) for each data value (R function). For example, for normal distribution there is such a function like:   “dnorm(q, mean = 0, sd = 1, lower.tail = TRUE, log.p = FALSE)”

Re: [R] overwritten plots in pdf file

2009-09-29 Thread baptiste auguie
Hi, Try opening and closing the device outside the loop, pdf(D:/research/plot.pdf) for (i in 1:n) { plot(mon, mu, type ='o') } dev.off() HTH, baptiste __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do

Re: [R] ggplot2 box plot notches

2009-09-29 Thread ONKELINX, Thierry
Dear Steve, I don't think that ggplot2 has that option. Hadley, please correct me if I'm wrong. HTH, Thierry ir. Thierry Onkelinx Instituut voor natuur- en bosonderzoek / Research Institute for Nature and Forest

Re: [R] Probability of data values form DENSITY function

2009-09-29 Thread Meyners, Michael, LAUSANNE, AppliedMathematics
Lina, check whether something like data.frame(density(rnorm(10))[1:2]) contains the information you want. Otherwise, try to be (much) more specific in what you want so that we do not need to guess (and of course provide minimal, self-contained, reproducible code). That has a higher chance to

Re: [R] preformatted and '#' in manual pages

2009-09-29 Thread Duncan Murdoch
Gábor Csárdi wrote: Dear All, I have the following in a .Rd file: ... human readable (not binary) format. The format itself is like the following: \preformatted{ \# vertex1name vertex2name [optionalWeight] vertex3name [optionalWeight] }

[R] Incoherence between arima.sim and auto.arima

2009-09-29 Thread Giusy
Hello, I have a question about function arima.sim I tried to somulate a AR(1) process, with no innovation, no error term. I used this code: library(forecast) e=rnorm(100,mean=0,sd=0) series=arima.sim(model=list(ar=0.75),n=100,innov=e)+20 Then I tried to applicate ti this series auto.arima

[R] Summary

2009-09-29 Thread Ashta
My data is called xc and has more than 15 variables. When I used summary(xc) it gave me the detail description of each variable. Summary(xc) Y1x1 x2 x3 .. Min. :0. Min. : 1.000 Min. : 1.000 Min. : 1.000 1st

[R] loop problem

2009-09-29 Thread crenial30
I have the following code which I wanted to convert using for loop previous code: R_ev1 - R_event[R_event (rx[1] + 300*0) R_event = (rx[1] + 300*1)] R_ev2 - R_event[R_event (rx[1] + 300*1) R_event = (rx[1] + 300*2)] R_ev3 - R_event[R_event (rx[1] + 300*2) R_event = (rx[1] + 300*3)] R_ev4 -

Re: [R] Comparing vectors from lists

2009-09-29 Thread jim holtman
something like this should work (not exactly sure what you mean by 'compare') result - lapply(List1, function(.lst1){ lapply(List2, function(.lst2, .lst1){ all(.lst2 %in% .lst1) }, .lst1 = .lst1) }) On Tue, Sep 29, 2009 at 10:34 AM, Christina Rodemeyer

Re: [R] preformatted and '#' in manual pages

2009-09-29 Thread Gábor Csárdi
On Tue, Sep 29, 2009 at 5:36 PM, Duncan Murdoch murd...@stats.uwo.ca wrote: Gábor Csárdi wrote: Dear All, I have the following in a .Rd file: ...      human readable (not binary) format. The format itself is like      the following:      \preformatted{        \# vertex1name        

[R] How can I avoid a for-loop through sapply or lapply ?

2009-09-29 Thread mauede
Through converting a miRNAs file from FASTA to character format I get a vector which looks like the following: nml [1] hsa-let-7a MIMAT062 Homo sapiens let-7a [2] hsa-let-7b MIMAT063 Homo sapiens let-7b [3] hsa-let-7c MIMAT064 Homo sapiens let-7c

Re: [R] A programming question - is what I want to do possible in R?

2009-09-29 Thread Martin Morgan
jim holtman wrote: Add a dummy argument to the function: randomSamples-lapply(1:2000,function(dummy){ + meta_comp[sample(nrow(meta_comp),nTimes),]}) Or df = data.frame(x=1:10, y=10:1) replicate(10, df[sample(nrow(df), 5),], simplify=FALSE) Martin On Mon, Sep 28, 2009 at 9:39 PM, ewaters

[R] axis scale issues....

2009-09-29 Thread chipmaney
I have read all the help on axis scales, which seems to be much harder to deal with than it should be, given how common the need to alter axes. Anywayyeah, suppress the axis using yaxt then call and define the new scale using axis(). The problem is, this doesn't change the actual axis,

Re: [R] How can I avoid a for-loop through sapply or lapply ?

2009-09-29 Thread Steve Lianoglou
Hi, On Sep 29, 2009, at 12:03 PM, mau...@alice.it wrote: Through converting a miRNAs file from FASTA to character format I get a vector which looks like the following: nml [1] hsa-let-7a MIMAT062 Homo sapiens let-7a [2] hsa-let-7b MIMAT063 Homo sapiens let-7b [3] hsa-let-7c

Re: [R] How can I avoid a for-loop through sapply or lapply ?

2009-09-29 Thread Charles C. Berry
On Tue, 29 Sep 2009, mau...@alice.it wrote: Through converting a miRNAs file from FASTA to character format I get a vector which looks like the following: nml [1] hsa-let-7a MIMAT062 Homo sapiens let-7a [2] hsa-let-7b MIMAT063 Homo sapiens let-7b [3] hsa-let-7c MIMAT064 Homo

Re: [R] axis scale issues....

2009-09-29 Thread jim holtman
Not sure exactly what you want, but does using 'ylim' do what you want: plot(1:5, sample(100:200,5), type='b', ylim=c(0,450)) On Tue, Sep 29, 2009 at 12:08 PM, chipmaney chipma...@hotmail.com wrote: I have read all the help on axis scales, which seems to be much harder to deal with than it

Re: [R] How can I avoid a for-loop through sapply or lapply ?

2009-09-29 Thread Ted Harding
On 29-Sep-09 16:03:31, mau...@alice.it wrote: Through converting a miRNAs file from FASTA to character format I get a vector which looks like the following: nml [1] hsa-let-7a MIMAT062 Homo sapiens let-7a [2] hsa-let-7b MIMAT063 Homo sapiens let-7b

Re: [R] How can I avoid a for-loop through sapply or lapply ?

2009-09-29 Thread jim holtman
How about this: x - c(sadfdsaf 24353245, 'wqerwqer 6577', 'xzcv 6587') sub(^([^[:space:]]+)[[:space:]].*, \\1, x) [1] sadfdsaf wqerwqer xzcv On Tue, Sep 29, 2009 at 12:03 PM, mau...@alice.it wrote: Through converting a miRNAs file from FASTA to character  format I get a vector which

Re: [R] ggplot2 box plot notches

2009-09-29 Thread stvienna wiener
Dear Thierry, Thank you very much for the fast reply. Is there a way not to plot outliers in the ggplot2 boxplots? In a way that the scale of the y-axis is rendered as if there was no outlier? (not just the the ouliers removed with the same scale of the y-axsis...) [ example for a boxplot:

Re: [R] loop problem

2009-09-29 Thread David Winsemius
That code is way more than a _minimal_ example, and its not _reproducible_ either, so just a comment: Have you considered creating a vector rather than separate event variables? R_ev[1:16] - R_event (rx[1] + 300*(0:15) R_event = (rx[1] + 300*(1:16) ?cut # would also appear to be a

Re: [R] plot error -- figure margins too large

2009-09-29 Thread Ping-Hsun Hsieh
Thanks, Uwe. You code does what I would like to have! Best, Mike -Original Message- From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de] Sent: Tuesday, September 29, 2009 1:36 AM To: Ping-Hsun Hsieh Cc: r-help@r-project.org Subject: Re: [R] plot error -- figure margins too large

Re: [R] help with lda function from MASS package

2009-09-29 Thread Pete Shepard
Thanks David, Yes, I am talking about the MASS package.Thank you for pointing out that these scale the same. My question is, how do I get from the V1 data: V1 1 164.4283 2 166.2492 3 170.5232 4 156.5622 5 127.7540 6 136.7704 7 136.3436 to the other set of data: + 1 -2.3769280 + 2

Re: [R] preformatted and '#' in manual pages

2009-09-29 Thread Duncan Murdoch
On 9/29/2009 11:57 AM, Gábor Csárdi wrote: On Tue, Sep 29, 2009 at 5:36 PM, Duncan Murdoch murd...@stats.uwo.ca wrote: Gábor Csárdi wrote: Dear All, I have the following in a .Rd file: ... human readable (not binary) format. The format itself is like the following:

Re: [R] Summary

2009-09-29 Thread Henrique Dallazuanna
Try this: sapply(xc, summary) On Tue, Sep 29, 2009 at 12:42 PM, Ashta sewa...@gmail.com wrote: My data is called  xc and has more than 15 variables. When I used summary(xc)   it gave me the detail description of each variable. Summary(xc)              Y1                x1            

Re: [R] Summary

2009-09-29 Thread William Dunlap
-Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Henrique Dallazuanna Sent: Tuesday, September 29, 2009 9:57 AM To: Ashta Cc: R help Subject: Re: [R] Summary Try this: sapply(xc, summary) This fails if there are NA's

Re: [R] Summary

2009-09-29 Thread Henrique Dallazuanna
A alternative in cases where is there NA's shoul be: sapply(sapply(df, summary), '[', 1:7) On Tue, Sep 29, 2009 at 2:28 PM, William Dunlap wdun...@tibco.com wrote: -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Henrique

Re: [R] help with lda function from MASS package

2009-09-29 Thread David Winsemius
If you want to see how Venables and Ripley get their lda distances, then this is a quick path to the (uncommented) source: 1) methods(lda) [1] lda.data.frame* lda.default*lda.formula*lda.matrix* 2) since you call involved a formula I looked first at: getAnywhere(lda.formula) A single

[R] vectors levels are carried through to subsets...

2009-09-29 Thread chipmaney
I have a dataset. Initially, it has 25 levels for a certain factor, Description. However, I then subset it, because I am only interested in 2 of the 25 factors. When I subset it, I get the following. The vector lists only the two factors, yet there remain 25 levels: Quadrats.df$Description

[R] start scripts directly in the console on windows machines

2009-09-29 Thread Martin Batholdy
hi, on the mac you have the opportunity to start a script directly instead of opening it in the script editor. So when I doubleclick on an .R - file the code is executed immediately. I haven't found such an option in the preferences of the R program for windows. Is there also a way to do

Re: [R] rbind for a list

2009-09-29 Thread Henrique Dallazuanna
Try this; do.call(rbind, sapply(gg2, '[', 1)) On Tue, Sep 29, 2009 at 2:43 PM, Carlos Hernandez carlos.u...@gmail.com wrote: Dear All, I´m using the following code: all1-gg2[[1]][[1]]; for(i in 1:48){ all1 - rbind(all1,gg2[[i]][[1]]) } to create a new matrix that contains all the matrices

[R] rbind for a list

2009-09-29 Thread Carlos Hernandez
Dear All, I´m using the following code: all1-gg2[[1]][[1]]; for(i in 1:48){ all1 - rbind(all1,gg2[[i]][[1]]) } to create a new matrix that contains all the matrices in a list called gg2. gg2 is a list that looks like gg2 [[1]] [[1]][[1]] matrix one [[2]] [[2]][[1]] matrix two . . . [[48]]

Re: [R] vectors levels are carried through to subsets...

2009-09-29 Thread Barry Rowlingson
On Tue, Sep 29, 2009 at 6:47 PM, chipmaney chipma...@hotmail.com wrote: I have a dataset.  Initially, it has 25 levels for a certain factor, Description. However, I then subset it, because I am only interested in 2 of the 25 factors.  When I subset it, I get the following. The vector lists

Re: [R] Data source for American college football rankings?

2009-09-29 Thread Douglas Bates
On Tue, Sep 29, 2009 at 7:56 AM, Douglas Bates ba...@stat.wisc.edu wrote: An interesting, and topical, example of multivariate data for classroom illustrations are the American college football rankings. Starting at the end of October (or week 8, the 8th week of the football season) a set of

Re: [R] rbind for a list

2009-09-29 Thread Carlos Hernandez
Thank you for your quick reply! It works perfectly! On Tue, Sep 29, 2009 at 7:51 PM, Henrique Dallazuanna www...@gmail.comwrote: Try this; do.call(rbind, sapply(gg2, '[', 1)) On Tue, Sep 29, 2009 at 2:43 PM, Carlos Hernandez carlos.u...@gmail.com wrote: Dear All, I´m using the

[R] how to draw a slope (using abline) with a specific starting point?

2009-09-29 Thread A.B.
plot(y~x, type='p', col=3, xlim=c(50,1000), ylim=c(0,80), xlab='', ylab='', data=example) abline(a=11, b=0.04, col = 2) -- Thanks, A.B. [[alternative HTML version deleted]] __ R-help@r-project.org mailing list

Re: [R] xyplot help - colors and break in plot

2009-09-29 Thread Tim Clark
Felix, Thanks, that did the trick! Lattice is a lot less intuitive than basic plotting! Also, another person suggested using gap.plot from the plotrix package to put a break in the graph. I am surprised Lattice doesn't have something similar since it seems like a common problem when you

Re: [R] rbind for a list

2009-09-29 Thread David Winsemius
On Sep 29, 2009, at 1:43 PM, Carlos Hernandez wrote: Dear All, I´m using the following code: all1-gg2[[1]][[1]]; for(i in 1:48){ all1 - rbind(all1,gg2[[i]] [[1]]) } Looks to me that you would be getting a duplicate copy of the first matrix, but aside from that what problems are you

[R] Equivalent for Matematica function Which...

2009-09-29 Thread Jarek Jasiewicz
Dear All! I'm looking for equivalent of Matematica function Which which works as follows: z = Which[x10,0.3, 10=x20,0.5, 20=x100,1] where x is a vector I can replace it with custom function with set of ifelse but I'm looking for simpler and faster (much faster) solution best wishes Jarek

[R] Macro variable substitution

2009-09-29 Thread David Young
Hello All, I'm a new R user and have a question about what in SAS would be called macro variable substitution. Below is some R code that doesn't work, but I think it will illustrate what I'd like to do. readfunc-function(x) { x - read.table(paste(x,.csv,sep=), header=TRUE,sep=,) }

Re: [R] Macro variable substitution

2009-09-29 Thread baptiste auguie
Hi, I guess you want ?assign See also this page for a working example, http://wiki.r-project.org/rwiki/doku.php?id=guides:assigning-variable-names HTH, baptiste 2009/9/29 David Young dyo...@telefonica.net: Hello All, I'm a new R user and have a question about what in SAS would be called

Re: [R] Equivalent for Matematica function Which...

2009-09-29 Thread Jarek Jasiewicz
well thanks, when I post the mail I thought I got too simple example which may be really replaced by cut, but I thought about little more: let say: z = Which[x10,x/3, 10=x20,0.5, 20=x100,x^2/(x-1)] where there are both values and formula sorry for mismatch and thanks for quick answer Jarek

Re: [R] Macro variable substitution

2009-09-29 Thread Erik Iverson
One option, see ?assign and write a wrapper around it, using the pos argument. -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of David Young Sent: Tuesday, September 29, 2009 10:58 AM To: r-help@r-project.org Subject: [R]

Re: [R] start scripts directly in the console on windows machines

2009-09-29 Thread David Winsemius
On Sep 29, 2009, at 1:49 PM, Martin Batholdy wrote: hi, on the mac you have the opportunity to start a script directly instead of opening it in the script editor. So when I doubleclick on an .R - file the code is executed immediately. I haven't found such an option in the preferences of

Re: [R] rbind for a list

2009-09-29 Thread Carlos Hernandez
On Tue, Sep 29, 2009 at 8:05 PM, David Winsemius dwinsem...@comcast.netwrote: On Sep 29, 2009, at 1:43 PM, Carlos Hernandez wrote: Dear All, I´m using the following code: all1-gg2[[1]][[1]]; for(i in 1:48){ all1 - rbind(all1,gg2[[i]][[1]]) } Looks to me that you would be getting a

[R] How to compile R with command completion?

2009-09-29 Thread Peng Yu
Hi, I want to compile R with command completion. But I don't find such an option in configure. Can somebody let me know how to enable command completion in an R session? Regards, Peng __ R-help@r-project.org mailing list

Re: [R] Equivalent for Matematica function Which...

2009-09-29 Thread Jarek Jasiewicz
well function arguments are in square brackets. z is result (new vector). I show Matematica syntax, but cannot explain what I expect. Sorry The example is wrong because it can be replaced by R cut function. The arguments are: condition,action and can be replaced by ste of ifelse formulas:

[R] PCA or CA

2009-09-29 Thread Paul Dennis
Dear all I have a data set for which PCA based between group analysis (BGA) gives significant results but CA-BGA does not. I am having difficulty finding a reliable method for deciding which ordination technique is most appropriate. I have been told to do a 1 table CA and if the 1st axis

Re: [R] Polynomial Fitting

2009-09-29 Thread chris carleton
Thanks for the response. I'm sorry I didn't provide the code or data example earlier. I was using the polynomial fitting technique of this form; test - lm(x[,34] ~ I(x[,1]) + I(x[,1]^2) + I(x[,1]^3)) for the original fitting operation. I also tried to use; lm(y ~ poly(x,3,raw=TRUE)) with the

Re: [R] Probability of data values form DENSITY function

2009-09-29 Thread Rolf Turner
On 30/09/2009, at 3:45 AM, Lina Rusyte wrote: Hello, Could someone help me please and to tell how to get the probability from empirical DENSITY (not parametric) for each data value (R function). For example, for normal distribution there is such a function like: “dnorm(q, mean = 0, sd =

Re: [R] Equivalent for Matematica function Which...

2009-09-29 Thread William Dunlap
-Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Jarek Jasiewicz Sent: Tuesday, September 29, 2009 11:36 AM To: Erik Iverson Cc: R-help@r-project.org Subject: Re: [R] Equivalent for Matematica function Which... well

Re: [R] Equivalent for Matematica function Which...

2009-09-29 Thread David Winsemius
On Sep 29, 2009, at 2:36 PM, Jarek Jasiewicz wrote: well function arguments are in square brackets. z is result (new vector). I show Matematica syntax, but cannot explain what I expect. Sorry The example is wrong because it can be replaced by R cut function. The arguments are:

Re: [R] how to visualize gini coefficient in each node in RF?

2009-09-29 Thread Liaw, Andy
No. The forest object is too large as is. I didn't think it's worth the extra memory to store them. They were never kept even in the Fortran/C code. Andy From: Chrysanthi A. Sent: Monday, September 28, 2009 5:20 PM To: r-help@r-project.org Subject: [R] how to visualize gini coefficient in

[R] creating Surv object from character vector

2009-09-29 Thread Erik Iverson
Hello, I have srv - Surv(sample(1:10), sample(0:1, 10, replace = TRUE)) srv [1] 1 10 2+ 8 6+ 7+ 3 5+ 4+ 9+ srv.char - as.character(srv) srv.char [1] 1 10 2+ 8 6+ 7+ 3 5+ 4+ 9+ Is there an inverse to as.character(srv). That is, I would like identical(srv,

Re: [R] Equivalent for Matematica function Which...

2009-09-29 Thread Jarek Jasiewicz
William Dunlap pisze: -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Jarek Jasiewicz Sent: Tuesday, September 29, 2009 11:36 AM To: Erik Iverson Cc: R-help@r-project.org Subject: Re: [R] Equivalent for Matematica function

Re: [R] error while plotting

2009-09-29 Thread Nair, Murlidharan T
-Original Message- From: Uwe Ligges [mailto:lig...@statistik.tu-dortmund.de] Sent: Tuesday, September 29, 2009 4:52 AM To: Nair, Murlidharan T Cc: r-help@r-project.org Subject: Re: [R] error while plotting Nair, Murlidharan T wrote: -Original Message- From: Uwe Ligges

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