[R] suppress output for meta in package tm

Hello, I am using the tm package and wish to suppress the output for meta. I am defining another variable for one of the tags and don't want the value printed on the screen. Any help would be appreciated. Thanks. here is the commnad: n_corp_file <- meta(corpa[[n]], "URI") -Amber [[a

Re: [R] Boxplot- input the median point and the median value

Dear Elaine, The posting guide is http://www.R-project.org/posting-guide.html bests milton On Fri, Jan 1, 2010 at 8:53 PM, elaine kuo wrote: > Dear, > > I am a newbie to R. > > Now I am learning to draw boxplot using graphics(). > > I want to high

Re: [R] caculate the frequencies of the Amino Acids

On Jan 2, 2010, at 12:55 AM, che wrote: i know it would be better to ask R to make the data, but i need to sequence this particular file, because it is data for some Amino Acids and i cant play with, so i need to ask R to go through the sequence one by one, and then give me the numbers

Re: [R] Help needed on applying a function across different data sets and aggregating the results into a single data set

Thanks for the replies, Jim, David, and Dennis (who replied to me directly)! To summarize, here's what worked for me: === dflist <- list(df1, df2, df3) lsfun <- function(df) with(df, lsfit(A, B)$coef) res <- lapply(dflist, lsfun) do.call(rbind, res) === cheers, -Girish Girish

Re: [R] caculate the frequencies of the Amino Acids

i know it would be better to ask R to make the data, but i need to sequence this particular file, because it is data for some Amino Acids and i cant play with, so i need to ask R to go through the sequence one by one, and then give me the numbers of each letters of each sequence, i am quite confus

Re: [R] caculate the frequencies of the Amino Acids

On Jan 2, 2010, at 12:26 AM, David Winsemius wrote: On Jan 1, 2010, at 11:59 PM, che wrote: may some one please help me to sort this out, i am trying to writ a R code for calculating the frequencies of the amino acids in 9 different sequences, i want the code to read the sequence from e

Re: [R] Identifying outliers in non-normally distributed data

If you're interested in handling outliers in analytical proficiency testing read current and past IUPAC guidance on PT (see http://www.iupac.org/objID/Article/pac7801x0145) and particularly references 1, 4, 5, and 11 therein, for starters. Although one might reasonably ask whether outliers are re

Re: [R] caculate the frequencies of the Amino Acids

On Jan 1, 2010, at 11:59 PM, che wrote: may some one please help me to sort this out, i am trying to writ a R code for calculating the frequencies of the amino acids in 9 different sequences, i want the code to read the sequence from external text file, i used the following code to do s

Re: [R] Help needed on applying a function across different data sets and aggregating the results into a single data set

On Jan 1, 2010, at 10:34 PM, Girish A.R. wrote: Hi folks, Wish y'all a Happy New Year 2010! I need some help with the following: Say I have lots of data sets, on which I have to apply a certain function on the same set of columns in each of the data set. Let's take, for ex, the typical

[R] caculate the frequencies of the Amino Acids

may some one please help me to sort this out, i am trying to writ a R code for calculating the frequencies of the amino acids in 9 different sequences, i want the code to read the sequence from external text file, i used the following code to do so: x<-read.table("sequence.txt",header=FALSE) then

Re: [R] Help with tryCatch

Dr Sorkin; You are a smart person. Why are you unable to create a working example that would allow testing of the code structure? On Jan 1, 2010, at 10:27 PM, John Sorkin wrote: coeffs <- matrix(nrow=10, ncol=3) dimnames(coeffs) < -list(NULL,c("BMI","BMIsq","min")) # set row counter n<-0

[R] using optim

Dear R People: I know that you can use "optim" for a function with several parameters. Is there an equivalent for 2 functions, please? Or should I put together a finite difference type of matrix, etc., please? Thanks, Happy New Year, Erin -- Erin Hodgess Associate Professor Department of Com

Re: [R] Help needed on applying a function across different data sets and aggregating the results into a single data set

try this (and happy new year): DF <- cbind("df1","df2",...,"df100") result <- lapply(DF, function(.name){ lsfit(get(.name)$A, get(.name)$B) }) do.call(rbind, result) # put into matrix On Fri, Jan 1, 2010 at 10:34 PM, Girish A.R. wrote: > > Hi folks, > > Wish y'all a Happy New Year 2010!

[R] Please help me!!!! Error in `[.data.frame`(x, , retained, drop = FALSE) : undefined columns selected

I am learning the package "caret", after I do the "rfe" function, I get the error ,as follows: Error in `[.data.frame`(x, , retained, drop = FALSE) : undefined columns selected In addition: Warning message: In predict.lm(object, x) : prediction from a rank-deficient fit may be misleading I

[R] Help needed on applying a function across different data sets and aggregating the results into a single data set

Hi folks, Wish y'all a Happy New Year 2010! I need some help with the following: Say I have lots of data sets, on which I have to apply a certain function on the same set of columns in each of the data set. Let's take, for ex, the typical data set is: df1 <- as.data.frame(cbind(rnorm(10),rnorm

[R] Help with tryCatch

Windows XP R 2.8.1 Colleagues, I am trying to run a function testone() and if the function completes without error do one set of instructions, and if the function generates either a warning or an error run another set of instructions. I have read try, and tryCatch help screens at least 20 times

[R] to discriminate AUC of different models

Dear, Regarding the methodology comparing the power of AUC generated by differernt models, please kindly suggest any R code available for the function. (similar to DeLong, DeLong, and Clarke-Pearson (1988) ) Thank you very much. Elaine [[alternative HTML version deleted]]

[R] Boxplot- input the median point and the median value

Dear, I am a newbie to R. Now I am learning to draw boxplot using graphics(). I want to highlight the median position with a round point and the value left (or on the top of)to the point. Please kindly share the command and thank you. Elaine [[alternative HTML version deleted]] _

[R] Boxplot- change the vertical line from dash to solid

Dear, I am a newbie to R. Now I am learning to draw boxplot using graphics(). I want to change the vertical line penetrating the box from dashed line to solid line Please kindly share the command and thank you. Elaine [[alternative HTML version deleted]] _

[R] Boxplot- change y axis partition

Hello, I am a newbie to R. Now I am learning to draw boxplot using graphics(). I want to change the default setting of y asix. from 0, 0.1, 0.2,0.8 to 0, 0.4, 0.8. Please kindly share the command and thank you. Elaine [[alternative HTML version deleted]] _

Re: [R] help with for loop

diff.zoo in the zoo package can take a vector of lags: library(zoo) z <- zoo(seq(10)^2) diff(z, 1:4) There are three vignettes (pdf documents) that come with zoo that have more info on the package. On Fri, Jan 1, 2010 at 8:16 PM, Rafael Moral wrote: > Dear useRs, > > I want to write a function

Re: [R] ifelse and piecewise function

On Jan 1, 2010, at 7:44 PM, roger king wrote: I am a novice user of "R" and I'm learning with R version 2.8.1, using WinEdt_1.8.1, under Widows Vista Home Version. ## The test function below, from a vector input, returns vector values: # and it contains an "ifelse"statement TEST<- fun

Re: [R] help with for loop

Look at your function; it is returning exactly what you are asking for: x.dif <- c(diff(my.vec), diff(my.vec, lag=i)) # the first and last values You probably want something like this: dif <- function(my.vec) { x.diff <- diff(my.vec) for(i in 2:(length(my.vec)-1)) { x.dif <- c(x.diff, diff(my.v

Re: [R] ifelse and piecewise function

Look at what 'loww' is in your function. You are passing in a vector of length 5 and that is what is being passed into integrate for 'lower' which is expecting an object of length 1. So determine what you want to pass in for lower (e.g., min(loww)). On Fri, Jan 1, 2010 at 7:44 PM, roger king wr

[R] help with for loop

Dear useRs, I want to write a function that generates all the possible combinations of diff(). Example: If my vector has length 5, I need the diff() until lag=4 -> c(diff(my.vec), diff(my.vec, lag=2), diff(my.vec, lag=3), diff(my.vec, lag=4)) If it has length 4, I need until lag=3 -> c(diff(my.

Re: [R] How to calculate density function of Bivariate binomial distribution

Hi Nykee, I checked out ??bivariate on my R installed libraries, and found about a hundred of occurrences of "bivariate". If nobody reply you with a streigth answer, give a look at: VGAM; splancs; sm; prada; geoR; fUtilities; fBasics; akima; adehabitat; vegan; ade4 and spatstat packages. bests m

[R] ifelse and piecewise function

I am a novice user of "R" and I'm learning with R version 2.8.1, using WinEdt_1.8.1, under Widows Vista Home Version. ## The test function below, from a vector input, returns vector values: # and it contains an "ifelse"statement TEST<- function(x) { low<- -x^2 up<- x^4 ifelse(x>=0,up,low )

[R] How to calculate density function of Bivariate binomial distribution

Am trying to do some study on bivariate binomial distribution. Anyone knows if there is package in R that I can use to calculate the density function of bivariate binomial distribution and to generate random samples of it. Thanks, -- View this message in context: http://n4.nabble.com/How-to-ca

Re: [R] How to use read.table with Hebrew column names ?

You might try: read.table("http://www.talgalili.com/files/aa.txt";, header = T, fileEncoding = "UTF-8", sep = "\t") -- David. On Jan 1, 2010, at 5:37 PM, Tal Galili wrote: Hi Jorge, Thank you for the answer, it is a lead. Though I am unsure as to what to do next with it :) Here is my sess

Re: [R] How to use read.table with Hebrew column names ?

On Jan 1, 2010, at 4:47 PM, Tal Galili wrote: Hello dear R help group, I am trying to read a .txt file, with Hebrew column names, while keeping the column names looking well in R - but without success. I uploaded an example file to: http://www.talgalili.com/files/aa.txt And am trying the

Re: [R] Chainging monthly data to daily data

Repeat the code you found but use na.locf in place of na.spline. On Fri, Jan 1, 2010 at 4:57 PM, Megh wrote: > > In the mean time, I have done some research and found following link here : > https://stat.ethz.ch/pipermail/r-sig-finance/2009q3/004677.html > > Although this is close to my problem,

Re: [R] How to use read.table with Hebrew column names ?

Hi Jorge, Thank you for the answer, it is a lead. Though I am unsure as to what to do next with it :) Here is my session info: > > sessionInfo() R version 2.9.1 (2009-06-26) i386-pc-mingw32 locale: LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=Englis

Re: [R] How to use read.table with Hebrew column names ?

Thanks Milton, But your solution would work for a one time problem, but in case I'd have a variable with Hebrew in it, or many files to process then your solution wouldn't scale up. Thanks anyway :) Tal Contact Details:--- Cont

Re: [R] How to not to terminate read.table if the input file is empty?

?try() On Fri, Jan 1, 2010 at 3:41 PM, Peng Yu wrote: > read.table terminates the program if the input file is empty. Is there > way to let the program continue and return me a NULL instead of > terminating the program? > > $ Rscript read_empty.R > > read.table("empty_data.txt") > Error in re

Re: [R] How to use read.table with Hebrew column names ?

Hi Tal, You want the colnames in hebrew? Case not, may be you can use colnames() to attrib new colnames. bests milton On Fri, Jan 1, 2010 at 4:47 PM, Tal Galili wrote: > Hello dear R help group, > > I am trying to read a .txt file, with Hebrew column names, while keeping > the > column names

Re: [R] How to not to terminate read.table if the input file is empty?

On Jan 1, 2010, at 4:42 PM, Peng Yu wrote: On Fri, Jan 1, 2010 at 3:19 PM, Peng Yu wrote: On Fri, Jan 1, 2010 at 2:54 PM, Dylan Beaudette wrote: ?try This works. Thank you! f=try(read.table("empty_data.txt")) Error in read.table("empty_data.txt") : no lines available in input One mor

Re: [R] need more help.... Re: iterating over a data frame the R way?

On Jan 1, 2010, at 11:20 AM, donahc...@me.com wrote: Okay, I don't know if I'm blocking because of my other programming language experience of if I'm just being dense. I have a data.frame with high,open,low,last,day, and start_time time columns. What I want to do is get all the rows with

Re: [R] Chainging monthly data to daily data

In the mean time, I have done some research and found following link here : https://stat.ethz.ch/pipermail/r-sig-finance/2009q3/004677.html Although this is close to my problem, I am not interested in any sort of interpolation, rather fill the NA positions with corresponding month's price. Any id

[R] How to use read.table with Hebrew column names ?

Hello dear R help group, I am trying to read a .txt file, with Hebrew column names, while keeping the column names looking well in R - but without success. I uploaded an example file to: http://www.talgalili.com/files/aa.txt And am trying the command: read.table("http://www.talgalili.com/files/a

Re: [R] How to not to terminate read.table if the input file is empty?

On Fri, Jan 1, 2010 at 3:19 PM, Peng Yu wrote: > On Fri, Jan 1, 2010 at 2:54 PM, Dylan Beaudette > wrote: >> ?try > > This works. Thank you! > >> f=try(read.table("empty_data.txt")) > Error in read.table("empty_data.txt") : no lines available in input One more question. Is there a way to suppres

Re: [R] How to not to terminate read.table if the input file is

On Fri, Jan 1, 2010 at 3:03 PM, jim holtman wrote: > ?try > > df <- try(read.table(...)) > if (inherits(df, 'try-error')){  what to do if file empty } For the case of using try, it is better to use inherits() rather than class(), or it doesn't matter? > On Fri, Jan 1, 2010 at 3:55 PM, Ted Hardin

Re: [R] How to not to terminate read.table if the input file is empty?

On Fri, Jan 1, 2010 at 2:54 PM, Dylan Beaudette wrote: > ?try This works. Thank you! > f=try(read.table("empty_data.txt")) Error in read.table("empty_data.txt") : no lines available in input > if(class(f)=='try-error') { + f=NULL + } > print(f) NULL > g=try(read.table("data.txt")) > print(g)

Re: [R] How to not to terminate read.table if the input file is empty?

Please reread my original post. You run it in a shell. I run it in a script. On Fri, Jan 1, 2010 at 2:53 PM, Henrik Bengtsson wrote: > Please give reproducible example, more information on your > troubleshooting and sessionInfo().  Cannot reproduce: > >> pathname <- "empty.txt" >> cat(file=pathna

Re: [R] How to not to terminate read.table if the input file is

?try df <- try(read.table(...)) if (inherits(df, 'try-error')){ what to do if file empty } On Fri, Jan 1, 2010 at 3:55 PM, Ted Harding wrote: > On 01-Jan-10 20:41:52, Peng Yu wrote: > > read.table terminates the program if the input file is empty. Is there > > way to let the program continue an

Re: [R] How to not to terminate read.table if the input file is

On 01-Jan-10 20:41:52, Peng Yu wrote: > read.table terminates the program if the input file is empty. Is there > way to let the program continue and return me a NULL instead of > terminating the program? > > $ Rscript read_empty.R >> read.table("empty_data.txt") > Error in read.table("empty_data.t

Re: [R] How to not to terminate read.table if the input file is empty?

?try On Fri, Jan 1, 2010 at 12:41 PM, Peng Yu wrote: > read.table terminates the program if the input file is empty. Is there > way to let the program continue and return me a NULL instead of > terminating the program? > > $ Rscript read_empty.R >> read.table("empty_data.txt") > Error in read.tab

Re: [R] How to not to terminate read.table if the input file is empty?

Please give reproducible example, more information on your troubleshooting and sessionInfo(). Cannot reproduce: > pathname <- "empty.txt" > cat(file=pathname) > print(file.info(pathname)) size isdir mode mtime ctime empty.txt0 FALSE 666 2010-01-01 12:50:

[R] How to not to terminate read.table if the input file is empty?

read.table terminates the program if the input file is empty. Is there way to let the program continue and return me a NULL instead of terminating the program? $ Rscript read_empty.R > read.table("empty_data.txt") Error in read.table("empty_data.txt") : no lines available in input Execution halted

Re: [R] cross validation for species distribution

Elaine, That's a fair answer, but completely not what I meant. I was hoping that you would elaborate on "the species data of species distribution models". What types of inputs and output for this particular modeling application etc. > Is it the same with the function inside caret, ipred, and e107

[R] Chainging monthly data to daily data

Hi, I have a zoo object with monthly frequency : library(zoo) dat <- zooreg(rnorm(50), as.yearmon("2000-01-01"), frequency=12) Now I want to make a zoo object with daily frequency from "dat" wherein value for a each day for a particular month will be value of "dat" at that particular month. Is

[R] Questions bout SVM

Hi everyone, Can someone please help me in these questions?: 1)if I use crossvalidation with svm, do I have to use this equation to calculate RMSE?: mymodel <- svm(myformula,data=mydata,cross=10) sqrt(mean(mymodel$MSE)) But if I don’t use crossvalidation, I have to use the foll

Re: [R] need more help.... Re: iterating over a data frame the R way?

Reinstall R but this time choose the Mac version that includes tcl. You shouldn't have to separately install it. On Fri, Jan 1, 2010 at 11:20 AM, wrote: > Okay, I don't know if I'm blocking because of my other programming language > experience of if I'm just being dense. > > I have a data.frame

Re: [R] need more help.... Re: iterating over a data frame the R way?

Hum. data.frame was left off. Trying again... On Jan 1, 2010, at 10:20 AM, donahc...@me.com wrote: Okay, I don't know if I'm blocking because of my other programming language experience of if I'm just being dense. I have a data.frame with high,open,low,last,day, and start_time time c

[R] need more help.... Re: iterating over a data frame the R way?

Okay, I don't know if I'm blocking because of my other programming language experience of if I'm just being dense. I have a data.frame with high,open,low,last,day, and start_time time columns. What I want to do is get all the rows with the same day and process each of those columns. If I

Re: [R] changing a list element's name during execution in lapply - possible?

Thanks Gabor, this is what I was looking for. Mark Am 01.01.2010 um 16:05 schrieb Gabor Grothendieck: > Try this: > > # same args as lapply. FUN must return named components. > lapplyWithRename <- function(...) { > x <- lapply(...) > names(x) <- sapply(x, names) > lapply(x, fun

Re: [R] changing a list element's name during execution in lapply - possible?

Try this: # same args as lapply. FUN must return named components. lapplyWithRename <- function(...) { x <- lapply(...) names(x) <- sapply(x, names) lapply(x, function(x) { names(x) <- NULL; x }) } # test function - if x is "A" then f returns c("Name A" = "A") f <- functi

Re: [R] changing a list element's name during execution in lapply - possible?

Is this what you want: >l <- list(a=NA, b=NA) > names(l) <- paste("new_", names(l), sep='') > l $new_a [1] NA $new_b [1] NA > On Fri, Jan 1, 2010 at 9:48 AM, Mark Heckmann wrote: > Hi David, > > thanks for the answer, though I am not sure what you mean. > My aim is the following out: > > i

Re: [R] changing a list element's name during execution in lapply - possible?

Hi David, thanks for the answer, though I am not sure what you mean. My aim is the following out: input to lapply > l $a [1] NA $b [1] NA output from lapply: > l $new_b [1] NA $new_b [1] NA Mark Am 01.01.2010 um 14:58 schrieb David Winsemius: > > On Jan 1, 2010, at 8:21 AM, Mark Heckman

Re: [R] XML and RCurl: problem with encoding (htmlTreeParse)

Thanks. Interestingly, your code works on my Mac 10.6.1 but not on my Win XP. See sessionInfo from below. Mac R: > sessionInfo() R version 2.9.2 (2009-08-24) i386-apple-darwin8.11.1 locale: fi_FI.UTF-8/fi_FI.UTF-8/C/C/fi_FI.UTF-8/fi_FI.UTF-8 attached base packages: [1] stats graphics grDevi

Re: [R] changing a list element's name during execution in lapply - possible?

On Jan 1, 2010, at 8:21 AM, Mark Heckmann wrote: Happy New Year, all! I want to do calculations on each element of a list l, but i want the returned list element to be named differently after the calculation. Is it possible to do the renaming somehow within the lapply call? l <-

[R] changing a list element's name during execution in lapply - possible?

Happy New Year, all! I want to do calculations on each element of a list l, but i want the returned list element to be named differently after the calculation. Is it possible to do the renaming somehow within the lapply call? l <- list(a=NA, b=NA) lapply(l, function(x) {names(

Re: [R] cross validation for species distribution

Dear, Thanks for the warmful help on New Year's EVE. Cross-validation is used to validate the predictive quality of the training data with testing data. As for the amount, the cross-validation (cv) is supposed to be based on k-fold cross-validation, k-1 for the training and 1 for the testing.