[R] free training for R-PLUS

2010-01-29 Thread Peng sandela
hi friends, I am new to R.I would like to know R-PLUS.Does any know where can I get the free training for R-PLUS. Regards, Peng. __ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http:

Re: [R] Taking mean of 3 cols in data frame : error

2010-01-29 Thread David Winsemius
On Jan 30, 2010, at 12:46 AM, Abhishek Pratap wrote: I exactly know my problem. The read.table by default reads my data from few columns as factors/character type. Can you please give me an example of how to force it to read these columns as numbers. I dont see example of how to use (as.is)

Re: [R] How to choose a number subset with sum closest to x?

2010-01-29 Thread Charles C. Berry
On Fri, 29 Jan 2010, Dimitri Shvorob wrote: I am looking for a function that, when supplied a vector of floats x, an integer n, and float s, would find me an n-subset of x with the sum closest to s. Can anyone point me to a package/function that can do the job - better yet, provide a relevant

Re: [R] Taking mean of 3 cols in data frame : error

2010-01-29 Thread Abhishek Pratap
I exactly know my problem. The read.table by default reads my data from few columns as factors/character type. Can you please give me an example of how to force it to read these columns as numbers. I dont see example of how to use (as.is) Thanks! -Abhi On Sat, Jan 30, 2010 at 12:34 AM, Abhishek

Re: [R] Taking mean of 3 cols in data frame : error

2010-01-29 Thread Abhishek Pratap
I see what is happening here. When I am reading the data frame values from a csv file, they are not read as numerics. _A On Sat, Jan 30, 2010 at 12:29 AM, Abhishek Pratap wrote: > Hi All > > I am seeing quite a silly thing for which I dont have much of > explanation. I want to take per row mean

[R] Taking mean of 3 cols in data frame : error

2010-01-29 Thread Abhishek Pratap
Hi All I am seeing quite a silly thing for which I dont have much of explanation. I want to take per row mean of 3 columns of a data frame. What I am getting is all NA in the result. Here is what I am doing apply(a[,1:3],1,mean) I get warnings. In mean.default(newX[, i], ...) : argument i

Re: [R] Fwd: Re: Graph color

2010-01-29 Thread Jim Lemon
On 01/30/2010 10:29 AM, Jose Narillos de Santos wrote: Hi Jim, Last question. I´m using a spanish version (there are some documents on how constructing good plots and I have found them althought not very intuitive...) I will read them in a next days. Only if you know the way. Imagine I have made

[R] Is there an equivalent of type="where" in predict.rpart, similiar to tree?

2010-01-29 Thread Yin Luo
In package tree, users can use predict(model,data,type="where") to find out which terminal node the observation belongs to. I can't seem to find a similar function in package rpart. Is there any way to find out the same information using rpart? Thanks! Yin Luo [[alternative HT

[R] Solving an optimization problem: selecting an "optimal" subset

2010-01-29 Thread Dimitri Shvorob
Given vector of numbers x, I wish to select an n-subset with sum closest to fixed value s. Can anyone advise me how to approach this, in R? I have considered Rcplex package, which handles integer/binary linear/quadratic optimization problems, but have difficulty setting up the quadratic form for

[R] convert a data frame with NULL to a list of integer

2010-01-29 Thread kennyPA
I have a data frame with integers mixed with a lot of NULLs, how do I convert that to multiple lists of integers with zero (to replace NULL)? I tried the following, and they failed: > dim(g2) [1] 25352 173 > class(g2) [1] "data.frame" > class(g2[1,]) [1] "data.frame" > g2[1,30:40] 30

[R] How to choose a number subset with sum closest to x?

2010-01-29 Thread Dimitri Shvorob
I am looking for a function that, when supplied a vector of floats x, an integer n, and float s, would find me an n-subset of x with the sum closest to s. Can anyone point me to a package/function that can do the job - better yet, provide a relevant code sample? (There are a few relevant packages

Re: [R] Constrained vector permutation

2010-01-29 Thread Charles C. Berry
On Fri, 29 Jan 2010, Andrew Rominger wrote: Being reasonably sure that all valid permutations are equally probable is important to me. I've played around with search algorithms in permuting contingency tables and find that possible solutions decrease rapidly once one starts assigning values, pa

[R] Questions on Mahalanobis Distance

2010-01-29 Thread Robert Lonsinger
Hello, I am a new R user and trying to learn how to implement the mahalanobis function to measure the distance between to 2 population centroids. I have used STATISTICA to calculate these differences, but was hoping to learn to do the analysis in R. I have implemented the code as below, but my re

Re: [R] question about transpose

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 6:58 PM, Zoppoli, Gabriele (NIH/NCI) [G] wrote: Hi all, if I transpose a matrix with t(data), the newly created colums do not appear to have the first row as header. How can I do to have all the newly created columns have their first row as a header? The term "header"

Re: [R] Constrained vector permutation

2010-01-29 Thread Andrew Rominger
Being reasonably sure that all valid permutations are equally probable is important to me. I've played around with search algorithms in permuting contingency tables and find that possible solutions decrease rapidly once one starts assigning values, particularly if small values are assigned first,

[R] question about transpose

2010-01-29 Thread Zoppoli, Gabriele (NIH/NCI) [G]
Hi all, if I transpose a matrix with t(data), the newly created colums do not appear to have the first row as header. How can I do to have all the newly created columns have their first row as a header? Thanks Gabriele Zoppoli, MD Ph.D. Fellow, Experimental and Clinical Oncology and Hematolog

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 6:53 PM, anna wrote: Well I just tried to convert it with data.frame and then data.matrix and it returned me a numeric vector but I am not done yet, let's see if it works, if it doesn't I will try sapply. I think I didn't use sapply because the vectors I am using in

Re: [R] function to create multiple lists

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 6:35 PM, David Winsemius wrote: On Jan 29, 2010, at 6:16 PM, Cat Morning wrote: Hi all, I want to write a function to create multiple lists (over 100 lists). For example: for(i in 1:5) pi = c(1:5) Try: p <-list() for(i in 1:5) p[[i]] = 1:5 You can reference the thi

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
Well I just tried to convert it with data.frame and then data.matrix and it returned me a numeric vector but I am not done yet, let's see if it works, if it doesn't I will try sapply. I think I didn't use sapply because the vectors I am using in lapply are of different lengths. - Anna Lippel

Re: [R] Poisson regression: computation of linear combination of coefficients. Should one use the scaled var-cov matrix?

2010-01-29 Thread John Sorkin
Peter, I should have added that because I have over dispersion, I am ruining a quasipoisson regression. John John David Sorkin M.D., Ph.D. Chief, Biostatistics and Informatics University of Maryland School of Medicine Division of Gerontology Baltimore VA Medical Center 10 North Greene Street GR

Re: [R] function to create multiple lists

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 6:16 PM, Cat Morning wrote: Hi all, I want to write a function to create multiple lists (over 100 lists). For example: for(i in 1:5) pi = c(1:5) Try: p <-list() for(i in 1:5) p[[i]] = 1:5 You can reference the third elements of the first vector as: p[[1]][3] but

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 6:14 PM, anna wrote: Bill this is exactly what is happening, by using lapply I am having a list and not a numeric vector, I want a numeric vector, is there a way to convert that list to a numeric vector? You could see if substituting sapply would yield a matrix. It w

Re: [R] Fwd: Re: Graph color

2010-01-29 Thread Jose Narillos de Santos
Hi Jim, Last question. I´m using a spanish version (there are some documents on how constructing good plots and I have found them althought not very intuitive...) I will read them in a next days. Only if you know the way. Imagine I have made a plot like plot(x,y) and I use labels (on each cros

Re: [R] Poisson regression: computation of linear combination of coefficients. Should one use the scaled var-cov matrix?

2010-01-29 Thread Peter Dalgaard
John Sorkin wrote: windows XP R 2.10 When computing the variance of a linear combination of the coefficients from a Poisson regression (i.e. glm with log link and offset) should one use the scaled or unscaled covariance matrix? For a simple linear regression (i.e. lm), I believe we use the u

[R] function to create multiple lists

2010-01-29 Thread Cat Morning
Hi all, I want to write a function to create multiple lists (over 100 lists). For example: for(i in 1:5) pi = c(1:5) but when i type: p2 i get the error Error: object 'p2' not found I want the lists to be numbered in this fashion, because I want to create another function that goes something

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
Bill this is exactly what is happening, by using lapply I am having a list and not a numeric vector, I want a numeric vector, is there a way to convert that list to a numeric vector? - Anna Lippel -- View this message in context: http://n4.nabble.com/Simple-question-on-replace-a-matrix-row-

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
Dennis, as soon as I do : > mat3[1, ] <- mat1 and class(mat3) I get a list and not a matrix anymore...So yes you drove me to the problem, mat1 is not one-row numeric matrix but a list. - Anna Lippel -- View this message in context: http://n4.nabble.com/Simple-question-on-replace-a-matrix-

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
David, I think I am going close to the problem, at the end of the function ComputeSignalReturns I build the matrix summary with cbind. So when I make class(summary) I get "matrix" but when I make class(summary[1,]) I get "list" Excuse me if I didn't show the problem the right way, I am still new a

Re: [R] How to use escape characters in a string

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 4:58 PM, mary guo wrote: Hi, I want to use a character as below in R, What character? as.character("`X^`R\`S") [1] "`X^`R`S" Warning messages: 1: '\`' is an unrecognized escape in a character string 2: unrecognized escape removed from "`X^`R\`S" > nchar("`X^`R\`S") [1]

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread William Dunlap
Bill Dunlap Spotfire, TIBCO Software wdunlap tibco.com > -Original Message- > From: r-help-boun...@r-project.org > [mailto:r-help-boun...@r-project.org] On Behalf Of anna > Sent: Friday, January 29, 2010 2:46 PM > To: r-help@r-project.org > Subject: Re: [R] Simple question on replace

Re: [R] How to use escape characters in a string

2010-01-29 Thread Bert Gunter
Please read R FAQ 7.37. You need to escape the backslash: > z<- as.character("`X^`R\\`S") > z [1] "`X^`R\\`S" > cat(z) `X^`R\`S Bert Gunter Genentech Nonclinical Statistics -Original Message- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of mary guo

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 4:54 PM, anna wrote: I was trying to avoid the code because I wanted to simplify it but here we go: mat2<- matrix(nrow = 30, ncol = 7) colnames(mat2) <-c( "A", "B", "C", "D", "E", "F", "G") mat1<-mainMat[1,] I get mainMat[1,] from the following function: Comput

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
What I did now is that I checked the class of both matrix before assigning the first row of mat2: class(mainMat) --> "matrix" class(mainMat[1,]) --> "list" class(mat2) --> "matrix" mat2[1,]<-mainMat[1,] class(mat2) --> "list" I think the problem comes from mainMat[1,] that should be of class "mat

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread Bert Gunter
Inline below... -Original Message- From: Gabor Grothendieck [mailto:ggrothendi...@gmail.com] Sent: Friday, January 29, 2010 2:12 PM To: Bert Gunter Cc: Jennifer Young; r-help@r-project.org Subject: Re: [R] evaluating expressions with sub expressions If its good enough to have one level o

[R] help on drawing right colors within a grouped xyplot (Lattice)

2010-01-29 Thread Zoppoli, Gabriele (NIH/NCI) [G]
Hi, I've lost my mind on it... I have to scatterplot two vectors, grouped by a third variable, with two different dimensions according to whether each cell line in the plot is sensitive or resistant to a given drug, and with a different color for each of 9 tissues of origin. Here's what I've

[R] How to use escape characters in a string

2010-01-29 Thread mary guo
Hi, I want to use a character as below in R, as.character("`X^`R\`S") [1] "`X^`R`S" Warning messages: 1: '\`' is an unrecognized escape in a character string 2: unrecognized escape removed from "`X^`R\`S" But I found errors. Can I use some option in as.character() to change this? Thanks Mary

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread Gabor Grothendieck
If its good enough to have one level of substitution then esub in my post (originally due to Tony Plate -- see reference in my post) is all that is needed: esub(mat[[2]], list(g1 = g1[[1]])) but I think the real problem could require multiple levels of substitution in which case repeated applicat

[R] regression with categorial variables

2010-01-29 Thread kayj
Hi All, I am working on an example where the electric utility is investigating the effect of size of household and the type of air conditioning on electricity consumption. I fit a multiple linear regression Electricity consumption=size of the house hold + air conditioning type There are 3 air

[R] Help interpreting libarary(nnet) script output..URGENT

2010-01-29 Thread cobbler_squad
Hello, I am pretty new to R. I am working on neural network classifiers and I am feeding the nnet input from different regions of interest (fMRI data). The script that I am using is this: library (MASS) heap_lda <- data.frame(as.matrix(t(read.table(file="R_10_5runs_matrix9.txt")))*10,syll =

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread William Dunlap
You asked And is there a yet simpler and more straightforward way to do the above than what I proposed? You could use S+, whose substitute() function (a) descends into expressions and functions (b) has an argument (evaluate=TRUE) so you don't need to use do.call when the fir

Re: [R] PNG resolution

2010-01-29 Thread Matthew Walker
Hi, For those who are interested in the solution to this problem, I modified the cairoDevice driver (version 2.10) so that it is now resolution-aware. The owner of the package will probably include my changes in his next release, but if in the meantime you would like to use the modified vers

Re: [R] shared object location

2010-01-29 Thread Seth Falcon
Hi, On 1/29/10 12:58 PM, Murat Tasan wrote: problem is, i haven't been able to do this yet. my workaround is to constantly swap into myRPackage/libs/ directory a version of the shared object library called myRPackage.so, and load it via the useDynLib(...) directive in the NAMESPACE file of the

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
I was trying to avoid the code because I wanted to simplify it but here we go: mat2<- matrix(nrow = 30, ncol = 7) colnames(mat2) <-c( "A", "B", "C", "D", "E", "F", "G") mat1<-mainMat[1,] I get mainMat[1,] from the following function: ComputeSignalReturns <- function(vec1

Re: [R] PNG resolution

2010-01-29 Thread Matthew Walker
__ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread Dennis Murphy
Hi: Check the class and dimensions of your objects. If mat1 is either an eight element numeric vector or a one-row matrix, you should have no problem: > mat1 <- 1:8 # vector > mat2 <- matrix(rnorm(240), nrow =30) > class(mat1) [1] "integer" > class(mat2) [1] "matrix" > mat3 <- mat2 > mat3

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread Bert Gunter
Folks: Stripped to its essentials, Jennifer's request seemed simple: substitute a subexpression as a named variable for a variable name in an expression, also expressed as a named variable. A simple example is: > e <- expression(0,a*b) > z1 <- quote(1/t) ## explained below The task is to "substi

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 4:33 PM, anna wrote: Here is how I get mat1: I have a matrix mainMat of 4 rows and 8 columns, I take the first row of it to build mat1. The problem might come from how I build mainMat --> each column comes from an lapply function which returns a list but I convert i

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
Here is how I get mat1: I have a matrix mainMat of 4 rows and 8 columns, I take the first row of it to build mat1. The problem might come from how I build mainMat --> each column comes from an lapply function which returns a list but I convert it to a matrix [4,1]... - Anna Lippel -- View t

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread anna
I convert them both before making matrix() on them. Let me try to send you more details - Anna Lippel -- View this message in context: http://n4.nabble.com/Simple-question-on-replace-a-matrix-row-tp1427857p1430130.html Sent from the R help mailing list archive at Nabble.com. __

[R] Poisson regression: computation of linear combination of coefficients. Should one use the scaled var-cov matrix?

2010-01-29 Thread John Sorkin
windows XP R 2.10 When computing the variance of a linear combination of the coefficients from a Poisson regression (i.e. glm with log link and offset) should one use the scaled or unscaled covariance matrix? For a simple linear regression (i.e. lm), I believe we use the unscaled matrix; for Po

Re: [R] Applying a function on each columns of a matrix

2010-01-29 Thread Henrique Dallazuanna
A example: set.seed(123) m <- matrix(rnorm(12), 3) myParam <- rowMeans(m) sweep(m, 1, myParam, FUN = "-") This subtracts the myParam value in each column. On Fri, Jan 29, 2010 at 6:59 PM, anna wrote: > > I had a quick look at the sweep function but didn't find a solution in it, I > am going to

Re: [R] Simple question on replace a matrix row

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 3:55 PM, anna wrote: Hello, I have a matrix mat1 of dim [1,8] and mat2 of dim[30,8], I want to replace the first row of mat2 with mat1, this is what I do: mat2[1,]<-mat1 but it transforms mat2 in a list I don't understand, I want it to stay a matrix... What makes yo

Re: [R] Vector from Matrix

2010-01-29 Thread Henrique Dallazuanna
Try this also: pmin(data.set[,1:100], data.set[,101:200])/colSums(data.set[,101:200]) On Fri, Jan 29, 2010 at 2:25 PM, Thiem Alrik wrote: > Dear Mailing List Members, > > the problem I've been grappling with für quite some time now is the following: > > I have a 100 rows x 200 columns matrix.

Re: [R] Applying a function on each columns of a matrix

2010-01-29 Thread anna
I had a quick look at the sweep function but didn't find a solution in it, I am going to look at it again then. - Anna Lippel -- View this message in context: http://n4.nabble.com/Applying-a-function-on-each-columns-of-a-matrix-tp1415660p1428193.html Sent from the R help mailing list archiv

[R] shared object location

2010-01-29 Thread Murat Tasan
hi all, i posted a question before about this, but i may have been too cryptic to understand. in short, there exists an R package that someone is writing. this package depends on a custom library (written in C,), compiled as a shared, and called by the package's functions via the .Call(...) metho

[R] Simple question on replace a matrix row

2010-01-29 Thread anna
Hello, I have a matrix mat1 of dim [1,8] and mat2 of dim[30,8], I want to replace the first row of mat2 with mat1, this is what I do: mat2[1,]<-mat1 but it transforms mat2 in a list I don't understand, I want it to stay a matrix... - Anna Lippel -- View this message in context: http://n4.na

Re: [R] Vector from Matrix

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 11:25 AM, Thiem Alrik wrote: Dear Mailing List Members, the problem I've been grappling with für quite some time now is the following: I have a 100 rows x 200 columns matrix. data.set <- matrix(rnorm(2, 100, 200)) I am guessing that you wanted to type: data.set <

Re: [R] Vector from Matrix

2010-01-29 Thread Dennis Murphy
Hi: Using an inelegant loop... df <- matrix(rnorm(2), 100, 200) res <- numeric(100) for (i in 1:100) res[i] <- sum(pmin(df[, i], df[, 100 +i]))/sum(df[, 100 + i]) res HTH, Dennis On Fri, Jan 29, 2010 at 8:25 AM, Thiem Alrik wrote: > Dear Mailing List Members, > > the problem I've been gr

Re: [R] Vectors with equal sd but different slope

2010-01-29 Thread Greg Snow
Here is one approach: library(MASS) cor1 <- diag(2) cor1[1,2] <- cor1[2,1] <- 0.5 cor2 <- cor1 cor2[1,2] <- cor2[2,1] <- 0.9 sd <- c(5,20) mns <- c(50, 100) cov1 <- diag(sd) %*% cor1 %*% diag(sd) cov2 <- diag(sd) %*% cor2 %*% diag(sd) one <- mvrnorm(100, mns, cov1, empirical=TRUE) two <- mvrn

Re: [R] help in R 2.9.x for R 2.10.x packages

2010-01-29 Thread Greg Snow
The problem there is that the function he is interested in (HWidentify) was added in version 2.5 of TeachingDemos, so going back to 2.4 does not give the help he wants. Another option for getting help is to download the pdf file from your local CRAN mirror. It has the help pages for all the fu

[R] Testing SVM-based system

2010-01-29 Thread Amy Hessen
Hi, I developed my program using SVM from R language and using some datasets from machine learning repository (UCI). Can anyone please tell me how I can get the results of any other machine learning algorithm that uses the same datasets in order to compare these results with my results?

Re: [R] Data.frame manipulation

2010-01-29 Thread AC Del Re
Thanks again, Dennis and Petr! The solution using the plyr package was perfect: ddply(data, .(id, mod1), summarize, es = mean(es), mod2 = head(mod2, 1)) Take care, AC On Thu, Jan 28, 2010 at 11:26 PM, Petr PIKAL wrote: > Hi > > r-help-boun...@r-project.org napsal dne 28.01.2010 17:40:01: > >

Re: [R] [BioC] Suppress output from getGEO

2010-01-29 Thread Sean Davis
On Fri, Jan 29, 2010 at 10:04 AM, Craig P. Pyrame wrote: > Dear R-ers, > > I am using getGEO to download expression data from the Gene Expression > Omnibus. With default settings, when a file is downloaded and parsed, lots > of dotted lines are printed in the terminal, like this: > > .. ..

[R] Vector from Matrix

2010-01-29 Thread Thiem Alrik
Dear Mailing List Members, the problem I've been grappling with für quite some time now is the following: I have a 100 rows x 200 columns matrix. data.set <- matrix(rnorm(2, 100, 200)) Now I would like to get a vector of length 100 which collects the values from the following procedure: T

[R] Problems with readVECT6 in spgrass6 package: A possible solution.

2010-01-29 Thread Juan . Giraldo
Hi I am working with spgrass6 package and GRASS v.6.2. Everything was fine until I tryed to read a vector file with readVECT6 (and other related vector commands, like vInfo). When I ran these commands, the problem immediately appeared (" Sorry, is not a valid flag" ). Ok, the solution

Re: [R] Merge and join data

2010-01-29 Thread Sean M. Lucey
Thank you, that worked great! Sean Peter Alspach wrote: Tena koe Sean I suspect the apply() and merge() functions are working, but they may not be doing what you expect :-) You could try rbind() and aggregate(): data.frame1$HAD <- as.numeric(NA) data.both <- rbind(data.frame1, data.fram

[R] Vectors with equal sd but different slope

2010-01-29 Thread syrvn
Hi, what I would need are 2 vector pairs (x,y) and (x1,y1). x and x1 must have the same sd. y and y1 should also exhibit the same sd's but different ones as x and x1. Plotting x,y and x1,y1 should produce a plot with 2 vectors having a different slope. Plotting both vector pairs in one plot with

Re: [R] Setting breaks for histogram of dates

2010-01-29 Thread Loris Bennett
Loris Bennett writes: > Hi, > > I have a list of dates like this: > > date > 2009-12-03 > 2009-12-11 > 2009-10-07 > 2010-01-25 > 2010-01-05 > 2009-09-09 > 2010-01-19 > 2010-01-25 > 2009-02-05 > 2010-01-25 > 2010-01-27 > 2010-01-27 > ... > > and am creating a histogram

[R] Saving Xpose.VPC as wmf and Turning off Recording

2010-01-29 Thread Vargo, Ryan
Dear All, I have been attempting to save the output from xpose.VPC as a windows metafile. When I ran vpc on PSN I had 6 groups and would like to output a single wmf for each graph. When I set max.plots.per.page=1, xpose turns on recording (page# in top right corner of output) and prints one grap

[R] combine 3 affybatches

2010-01-29 Thread joez
Hello, Im trying to combine 3 affybatches (1x hgu133+2 array and 2x hgu133a array) Im useing this script: library(matchprobes) library(affy) library(AnnotationDbi) library(hgu133plus2probe) library(hgu133aprobe) library(hgu133a.db) u133p2 = ReadAffy() # reading hgu133 +2 cel file into affybatch

[R] Using win-builder with static libraries

2010-01-29 Thread Maxime Debon
Dear All, I am intending to build a package (pksmooth) on Linux to work on Windows. Some c++ functions need c++ libraries (numerical recipes) from a static library "libNR.a". Building the package on Linux for Linux is allright. However, when sending the 'pksmooth_1.0.tar.gz' to the online Windows

Re: [R] How do people use Sweave / R / Databases

2010-01-29 Thread Marc Schwartz
On Jan 29, 2010, at 1:28 PM, Paul wrote: > I'm currently using r scripts in sweave to grab some data via ODBC, process > it then generate some tables. I'd like to be able to give someone the files > and let them reproduce what I've done. Is there some way to store the data > that is gathered

Re: [R] How do people use Sweave / R / Databases

2010-01-29 Thread Seth Falcon
On 1/29/10 11:45 AM, Duncan Murdoch wrote: On 29/01/2010 2:28 PM, Paul wrote: I'm currently using r scripts in sweave to grab some data via ODBC, process it then generate some tables. I'd like to be able to give someone the files and let them reproduce what I've done. Is there some way to store

Re: [R] How do people use Sweave / R / Databases

2010-01-29 Thread Tobias Verbeke
Duncan Murdoch wrote: On 29/01/2010 2:28 PM, Paul wrote: I'm currently using r scripts in sweave to grab some data via ODBC, process it then generate some tables. I'd like to be able to give someone the files and let them reproduce what I've done. Is there some way to store the data that is

Re: [R] How do people use Sweave / R / Databases

2010-01-29 Thread Duncan Murdoch
On 29/01/2010 2:55 PM, Tobias Verbeke wrote: Duncan Murdoch wrote: > On 29/01/2010 2:28 PM, Paul wrote: >> I'm currently using r scripts in sweave to grab some data via ODBC, >> process it then generate some tables. I'd like to be able to give >> someone the files and let them reproduce what I

Re: [R] help in R 2.9.x for R 2.10.x packages

2010-01-29 Thread Uwe Ligges
Dear Michael, the help system has been rearranged considerably. It is not possible to use binary packages prepared under R-2.10.x with earlier versions of R. The other way round is also not a really good idea. Note also that the most recent version of TeachingDemos (2.5) uses help markup tha

Re: [R] help in R 2.9.x for R 2.10.x packages

2010-01-29 Thread Duncan Murdoch
On 29/01/2010 2:34 PM, Michael Friendly wrote: [Env: Win Xp] Is there any options() setting or call to help() or help.start() that will allow me to view a help file for a package built under R 2.10.x under R 2.9.2? I'm using both R 2.9.2 and R 2.10.1, but prefer the former because the CHM he

Re: [R] How do people use Sweave / R / Databases

2010-01-29 Thread Duncan Murdoch
On 29/01/2010 2:28 PM, Paul wrote: I'm currently using r scripts in sweave to grab some data via ODBC, process it then generate some tables. I'd like to be able to give someone the files and let them reproduce what I've done. Is there some way to store the data that is gathered by ODBC so tha

[R] help in R 2.9.x for R 2.10.x packages

2010-01-29 Thread Michael Friendly
[Env: Win Xp] Is there any options() setting or call to help() or help.start() that will allow me to view a help file for a package built under R 2.10.x under R 2.9.2? I'm using both R 2.9.2 and R 2.10.1, but prefer the former because the CHM help is so much easier to use. Yet, if I install a

[R] SemiPar/spm question

2010-01-29 Thread Chuck White
Hello -- I posted this question yesterday and for some reason the post seems to be attached to the wrong thread. Also, I extended my test a little and it seems to indicate the problem is with spm. I would appreciate any help. Thanks. == lib

[R] How do people use Sweave / R / Databases

2010-01-29 Thread Paul
I'm currently using r scripts in sweave to grab some data via ODBC, process it then generate some tables. I'd like to be able to give someone the files and let them reproduce what I've done. Is there some way to store the data that is gathered by ODBC so that the second person can recreate th

Re: [R] Question on codetools and parse trees

2010-01-29 Thread Duncan Murdoch
On 29/01/2010 2:03 PM, Saptarshi Guha wrote: Dear R Users, Using codetools I obtained the text representation of the parse tree for this snippet z=quote({x[1]<-2}) showTree(z) > ("{" (<- ([ x 1) 2)) (A) If I understand correctly, x[1]<-2 ought to be "[<-"(x,1,2), so shouldn't i see ("{"

[R] code for FD

2010-01-29 Thread Giovanni Bacaro
Dear list members, I'm tryng to write the code in order to calculate the index (expression 2) published in Ricotta & Burrascano 2008 (Preslia 80, pp 61-71). Specifically, I'm having some problems in extending the index for more than two observations. Does anyone already write a function for such

[R] Question on codetools and parse trees

2010-01-29 Thread Saptarshi Guha
Dear R Users, Using codetools I obtained the text representation of the parse tree for this snippet z=quote({x[1]<-2}) showTree(z) > ("{" (<- ([ x 1) 2)) (A) If I understand correctly, x[1]<-2 ought to be "[<-"(x,1,2), so shouldn't i see ("{" ( [<- x 1 2 ) ) If indeed the parse tree in

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread Gabor Grothendieck
The following recursively walks the expression tree. The esub function is from this page (you may wish to read that entire thread): http://tolstoy.newcastle.edu.au/R/help/04/03/1245.html esub <- function(expr, sublist) do.call("substitute", list(expr, sublist)) proc <- function(e, env = parent.f

Re: [R] Applying a function on each columns of a matrix

2010-01-29 Thread Henrique Dallazuanna
See sweep function On Fri, Jan 29, 2010 at 2:32 PM, anna wrote: > > Hello everyone, I have the following matrix >             [,1]          [,2]          [,3]         [,4] >  [1,]  0.002809706  0.0063856960  0.0063856960  0.011749681 >  [2,]  0.004893124  0.0023118418 -0.0005122951 -0.014646465 >

Re: [R] Create matrix with subset from unlist

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 1:07 PM, Muhammad Rahiz wrote: OK, I've got this. The output prints what I want, but I'm not sure if there will be problems in further analysis because the main idea is to convert the data from list to matrix. I'm quite concerned with how I define xx2. xx <- unlist(

Re: [R] Create matrix with subset from unlist

2010-01-29 Thread Muhammad Rahiz
OK, I've got this. The output prints what I want, but I'm not sure if there will be problems in further analysis because the main idea is to convert the data from list to matrix. I'm quite concerned with how I define xx2. xx <- unlist(x) # Unlist from lapply + read.table a <- seq(1,1

Re: [R] Create matrix with subset from unlist

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 12:43 PM, Muhammad Rahiz wrote: Thanks David & Dennis, I may have found something. Given that the object xx is the product of unlist(x), to create a 2x2 matrix with subsets, I could do, > y <- matrix(xx[c(1:4)], 2, 2). This returns, [,1] [,2] [1,] -27.3 14.4 [2

Re: [R] Create matrix with subset from unlist

2010-01-29 Thread Muhammad Rahiz
Thanks David & Dennis, I may have found something. Given that the object xx is the product of unlist(x), to create a 2x2 matrix with subsets, I could do, > y <- matrix(xx[c(1:4)], 2, 2). This returns, [,1] [,2] [1,] -27.3 14.4 [2,] 29.0 -38.1 If I do, > y2 <- matrix(xx[c(5:8)],2,2

Re: [R] Applying a function on each columns of a matrix

2010-01-29 Thread anna
But then I would have to make a loop right? - Anna Lippel -- View this message in context: http://n4.nabble.com/Applying-a-function-on-each-columns-of-a-matrix-tp1415660p1415743.html Sent from the R help mailing list archive at Nabble.com. __ R-h

Re: [R] Step function

2010-01-29 Thread Charles C. Berry
On Fri, 29 Jan 2010, Ashta wrote: Hi All, Does the step function work in this model? I tried to run the following model but no result obtained. The computer is hanging and I killed the job several times. Below is the code. library(survival) m.fit=clogit(y~x1+x2+x3+x4, data=ftest) summary(m.f

Re: [R] how to express time series linear model Q(t) ~ Q(t-1)+.. Q(t-n) as a formula

2010-01-29 Thread Carlos J. Gil Bellosta
Hello, You may problably need to create the lagged vars yourself and use them as input for the NN. Best regards, Carlos J. Gil Bellosta http://www.datanalytics.com http://datanalytics.wordpress.com CJ Rubio wrote: For example I have a time series Q(t) ~ Q(t-1) + Q(t-2) + Q(t-3) meaning t

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread Jennifer Young
Hmm I *think* this will work, but may break in a further sub routine. It certainly works in this example, but my expression vector is used in many scenarios and it will take a while to check them all. For instance, I take the derivative of each element with respect to each variable using sapply(

Re: [R] Applying a function on each columns of a matrix

2010-01-29 Thread Carlos J. Gil Bellosta
Hello, You could do something along the following lines: sapply( 1:ncol( my.matrix ), function( i ) my.foo( my.matrix[,i], my.parm[i] ) Best regards, Carlos J. Gil Bellosta http://www.datanalytics.com anna wrote: Hello everyone, I have the following matrix

Re: [R] evaluating expressions with sub expressions

2010-01-29 Thread baptiste auguie
Hi, Would this do as an alternative syntax? g1 <- quote(1/Tm) mat <- list(0, bquote(f1*s1*.(g1))) vals <- data.frame(f1=1, s1=.5, Tm=2) sapply(mat, eval, vals) HTH, baptiste On 29 January 2010 17:51, Jennifer Young wrote: > Hallo > > I'm having trouble figuring out how to evaluate an expres

[R] evaluating expressions with sub expressions

2010-01-29 Thread Jennifer Young
Hallo I'm having trouble figuring out how to evaluate an expression when one of the variables in the expression is defined separately as a sub expression. Here's a simplified example mat <- expression(0, f1*s1*g1) # vector of formulae g1 <- expression(1/Tm) # expansion of the definition

Re: [R] detect brightness of hex color value in R / convert from hex to hsl/hsv space how?

2010-01-29 Thread Greg Snow
There is a col2grey (and col2gray) function in the TeachingDemos package that use a common algorithm to convert colors to grey based on perceived lightness, that may work for you on deciding the color. For placing text on colored backgrounds, look at the shadowtext function (also in TeachingDem

Re: [R] two sample chi-squared test

2010-01-29 Thread David Winsemius
On Jan 29, 2010, at 11:11 AM, eric lee wrote: Hello, Can you tell me what R function to use to do a two-sample chi-squared test? I want to see if two distributions are significantly different from each other, and I don't specify the theoretical distribution of either. For example, I have the

[R] create an R object in a loop

2010-01-29 Thread Ivan Calandra
Hi everybody, To run some statistical tests from the package WRS (from Rand R Wilcox), I need to store my data in a list, which fac2list() from this package does very well. But I would like to do it in a loop for each numerical variable. It would be easier! For now, I have the loop with the

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