similar to: Printing data frame with million rows

Dear all, I have one problem and did not find any solution.(I have also attached the problem in text file because sometimes column spacing is not good in mail) I have a file(file.txt) attached with this mail.I am reading it using this code to make a data frame (file)- file=read.table("file.txt",fill=T,colClasses = "character",header=T) file looks like this- Chr Pos

Dear all, I have 100 files which are used as input.and I have to input the name of my files again and again.the name of the files are 1.out, 2.out......100.out. I want to know if there is anything like perl so that i can use something like this- for($f = 1; $f <= 100; $f++) { $file = $f.".out"; I have tried this thing in R but it does not work.Can somebody please help me.

Dear all, I am using grep but I did not understand the problem as I am doing something wrong.Please help me. I am using this code- sf=data.frame(sapply(df[],function(x) grep('\\.&\\,', df[,9]))) the thing is i have a data frame(df) like this- 10 135349467 g G 4 0 0 5 ,,,., 10 135349468 t T 2 0 0 5 ,,c., 10 135349469 g G 7 0 0 5 ,,a., 10 135349470 c C 8 0 0 5 ,,,., 10 135349471

Dear all, I am doing a project on variant calling using R.I am working on pileup file.There are 10 columns in my data frame and I want to count the number of A,C,G and T in each row for column 9.example of column 9 is given below- .a,g,, .t,t,, .,c,c, .,a,,, .,t,t,t .c,,g,^!. .g,ggg.^!, .$,,,,,.,

Dear all, I have a data frame whose name is m1. I want to write this data frame in text file as output.I am using this code- write.table(m1, file = "kas.txt", append = FALSE,row.names=F,quote=F,sep="\t") When I am opening my kas.txt file,the column names are not coming exactly above the column. What should I do.Please help me. Thanking you, Warm Regards Vikas Bansal Msc

Dear all, I have two data frames- x1 and y1 with same row names and column names(actually the names of the patients). x1 a b c d e a 1.0000000 0.4730679 0.6226994 0.6036036 0.6433333 b 0.4730679 1.0000000 0.6227273 0.6303855 0.5730858 c 0.6226994 0.6227273 1.0000000 0.7290503 0.6900585 d 0.6036036 0.6303855 0.7290503 1.0000000

Dear all, The 5th column of my data frame is like this- .$.$.$.$.$,$,$...,,,,,.,,.,,...,,,,.,,....,,,T...,,,,,,,,,,,.,,,,,....,,...,, ,..,,....,,,,,...,,,..,,......,,,,,,,....,,,.,,,,....,,...G.,,,,,,,,...,,,,,,.,, ,t.,,c,,.a.,,,.A,,,,....,,,.....,,,,..........,,,,,..,,,.,,,....,,,,,...,,,$.... .,,,,..,,,...,,,,,..,,,,,,.............$..,,,,,,...,,..,,$,...,,,,,,,....,,,,,,.

Dear all, I need your help as I was not able to find out the solution. The thing is- I am having a code which is reading file with this code- df=read.table("Case2.pileup",fill=T,sep="\t",colClasses="character") but as am making a tool so that user can use it and can do analysis on his file.But the name of the file will not be Case2.pileup and I want to use this

Dear all, I have a data frame df and i am using a code shown below. df[, "total"] <- rowSums(df[, 3:6]) MAKING A NEW COLUMN total in df BY ROWSUMS defineSamples<- function() { readline("enter the number of INDIVIDUALS IN POOL: ") } df$ind=definesamples() CALLING THE FUNCTION AND STORING THE INPUT FROM USER IN NEW COLUMN OF df df[, 3:6] <-

Folks: I consider my reply below rather clumsy: One has to keep track of index numbers other than that which is inserted and must separately change column names. Is there as "essentially better" way to do this, either via base R or via an R package. I leave it to you to define "essentially better." Thanks. Cheers, Bert On Mon, Aug 1, 2011 at 10:17 AM, Bert Gunter

Hello, This one is very perplexing. I have teacher observation data, with factors teacher ID, observer ID, component, grade and subject. When I do this, aov(data=ratings.prin.22, rating ~ obsid.f + tid.f + subject.f + grade.f + comp.f) I get this: Terms: obsid.f tid.f grade.f comp.f Residuals Sum of Squares 306.23399 221.38173 1.70000 14.52831 279.05780 Deg. of

I have a data set with about 6 million rows and 50 columns. It is a mixture of dates, factors, and numerics. What I am trying to accomplish can be seen with the following simplified data, which is given as dput output below. > head(myData) mydate gender mygroup id 1 2012-03-25 F A 1 2 2005-05-23 F B 2 3 2005-09-08 F B 2 4 2005-12-07 F B 2

Hi all R users, I have problems with my second loop for drawing the three curves in the same graphic. I need help please Thank you in advance ######################################################################### simulation <- function(k, n){ conc <- seq(0,100,by=0.5) #choixg <- seq(1, length(conc)) choixg <- rep(0,length(conc)) for (i in 1:length(conc)){ choixg[i] <- (k

I have no idea as to how to size an email server. I was approached by a customer that wanted a single server with RAID 1 disks to handle about 5 million emails a day. In general terms, what parameters should I take into account to size the hardware specs when the average email is about 10kb, the smalles email is 2kb and the largest email is about 5meg (with attachment) thanks, --

Hi All I have a vector of about 15 million numbers which I would like to plot. The goal is the see the distribution. I tired the usual steps. 1. Histogram : never gets complete my window freezes w/out log base 10 2. Density : I first calculated the kernel density and then plotted it which worked. It would be nice to superimpose histogram with density but as of now I am not able to get this

Hi, my data table has 38939 rows. R prints the first 11111 columns and then prints an error message:[ reached getOption("max.print") -- omitted 27821 rows ]]. is it possible to set the maxprint parameter so that R prints all the rows? tia, anjan -- ============================= anjan purkayastha, phd bioinformatics analyst whitehead institute for biomedical research nine cambridge

List, Consider the following data. gender mygroup id 1 F A 1 2 F B 2 3 F B 2 4 F B 2 5 F C 2 6 F C 2 7 F C 2 8 F D 2 9 F D 2 10 F D 2 11 F D 2 12 F D 2 13 F D 2 14 M A 3 15 M A 3 16 M A 3 17

Hi, I used postfix always_bcc to backup mail. And up to now the backup account has half million mails in cur/, when I first time tried to receive the mail by outlook, it failed , no responds. Does any one has some good idea to deal with this problem? Thanks

I'm trying to sync up 54 million files. I can break it down into different applications, but I still have to accomplish 17 million files in one "chunk" if possible. I'm using a fast (v440) cpu system with 32G ram. Originally I was running out of memory (seemed to increase like crazy with --delete on). I've upgraded to rsync 2.6.6 and the memory seems to be more stable

If someone posted already, forgive me I get the digest. http://www.tgdaily.com/content/view/43480/108/ Scientists get a million Linux kernels to run at once Scientists at Sandia National Laboratories in Livermore, have run more than a million Linux kernels as virtual machines. (how long before shared hosts use this....lol) The technique will allow them to effectively observe behaviour found