similar to: Memory limits using read.table on Windows XP Pro

Dear R-developers: I'm trying to build a 64-bit R-patched_2006-07-24 on SunFire V40z with on Solaris OS 10 64-bit kernel and using Sun Studio 11 compilers. Everything runs OK until it gets to building package tools (all.R) where it fails. Bellow is how I tried it (I can provide any other additional info if needed). Any help please? Thank you very much Latchezar Dimitrov Wake Forest Univ.

I came across this in connection with an unrelated issue > beta[2] Error in beta[2] : object is not subsettable > beta[2] <- 5 Error in "[<-"(`*tmp*`, 2, value = 5) : object is not subsetable One of the messages must be wrong, but I need a native English speaker to tell me which one. -- O__ ---- Peter Dalgaard Blegdamsvej 3 c/ /'_ --- Dept. of

Hi, ? I am very new to R. So, pardon my dumb question. I was trying to write my own function to run a different model (perform an ordered logistic regression) using the example in website http://pngu.mgh.harvard.edu/~purcell/plink/rfunc.shtml But R returns a error `R Error in eval(expr, envir, enclos) : object 's' not found' when I run it. What am I doing wrong here? Here's

Hello list, I read in a txt file using <B<-read.table(file="data.snp",header=TRUE,row.names=NULL) by specifying the row.names=NULL so that the rows are numbered. Below is an example after how the table looks like using <B[1:10,1:3] SNP Chromosome PhysicalPosition 1 SNP_A-1909444 1 7924293 2 SNP_A-2237149 1 8173763

hi, I need to remove the list that does not have any values.Do suggest me the way to do it. result<- list() > head(result) [[1]] [,1] [,2] [,3] [[2]] [,1] [,2] [,3] [[3]] [,1] [,2] [,3] [[4]] [,1] [,2] [,3] [[5]] [,1] [,2] [,3] [1,] "HIGD1C" "SNP_A-2058537" "4" [2,] "HIGD1C" "SNP_A-1955347"

Dear list, I have a data frame (238304 rows and 6 columns). I want the data frame sorted by two columns in ascending order. I am showing the first 5 rows of the data frame > clones.info[1:5,1:6] USER_CLONE_ID CHROMOSOME Expr1002 KB_POSITION Allele_A WELL_ID 1 SNP_A-1855402 17 41419603 41419603 C rs17572851 2 SNP_A-4249904 17 41420045 41420045 A rs17572893 3 SNP_A-2174835 18 41407760

Please suggest areas that I should troubleshoot. This command used to give me an answer and now it gives me an error. > mean(no.genot,na.rm=T) Error in tapply(x, by, sum, na.rm = TRUE) : arguments must have same length I tried removing the na.rm=T) > mean(no.genot) Error in `names<-.default`(`*tmp*`, value = c("by.1", "by.0")) : attempt to set an

We have R 2.2.1 installed on a Linux cluster that seems to have problems loading either of our shared object libraries for packages. This seems to be happening on both local and global versions of packages that we install. However, we have only noticed this problem in the past 3 months on this R installation, whereas some users had success before then. It could be that something on our system

Re-sending this from 10/7. Please help! I'm really clueless how to fix this: System: Solaris 7, Software: R_1.7.1 for unix > R CMD INSTALL -l /Rdir/library haplo.stats_1.1.0.tar.gz -works like a charm-- no syntax errors, etc But problems are when I'm loading the library within R. > library(haplo.stats, lib.loc="/people/biostat3/sinnwell/Rdir/library") > Error

Hello I have two peers setup and working with x2 bricks each. They have been working via tcp for the last 4-5 months. I just got two Infiniband cards and put the on the peers. I want to change the transport type to rdma instead of tcp but I don't see an easy way to do this. Can you please help me with proper instructions. Best Regards Ivan Dimitrov

Hi all, Hope someone can help me. I start out with a matrix called haplo with 600 rows and two columns. To start with, the elements of the matrix are character strings of 20 numbers. I then want to create separate objects, called ha1-ha600, that are the concatenated 20 + 20 numbers, as numeric. I am having no trouble doing anything except getting the index i to paste to the object ha(i) in

I am receiving the above error ( full r session output below) the script runs OK in windows. and "genotypes" and "ploidy" are both correct arguments any suggestions would be most welcome Nevil Amos MERG/ACB Monash University School of Biological Sciences > library(Geneland) Loading required package: RandomFields Loading required package: fields Loading required

Hi everyone, I have a data frame Gene with SNPs eg. P1 P2 P3 CG CG GG -- -- AC -- AC CC AC -- AC I tried to replace all the GG with a value 3. Gene[Gene=="GG"]<-3 It always give me: Warning in `[<-.factor`(`*tmp*`, thisvar, value = 3) : invalid factor level, NAs generated Does any know if there is anything wrong with my code? Thanks, Zhengyu

Hi, there, I cannot get accurate value for calculation. for example: ld<-sqrt(1*0.05*0.95*0.05*0.95) 0.05*0.95-ld=-6.938894e-18 0.05*0.95-ld==0 is False. I met this problem in my program, how can I handle it. Thanks. xj.

Hi everyone, I'm using the function 'HWE.exact' of 'genetics' package to compute p-values of the HWE test. My data set consists of ~600 subjects (cases and controls) typed at ~ 10K SNP markers; the test is applied separately to cases and controls. The genotypes are stored in a list of 'genotype' objects, all.geno, and p-values are calculated inside the loop over all

Why doesn't this work? > samples$geno <- as.data.frame(sapply(yo, toupper), col.names="geno") > samples quant_samples age sapply(yo, toupper) E11.5 F20het BA40 E11.5 F20het BA40 E11.5 F20HET E11.5 F20het BA45 E11.5 F20het BA45 E11.5 F20HET

A non-text attachment was scrubbed... Name: not available Type: text/enriched Size: 1819 bytes Desc: not available Url : https://stat.ethz.ch/pipermail/r-help/attachments/20030214/7f3adccd/attachment.bin

Hi all, I have a R script that creates several input files for an analysis program. It loops through the matrix read into R and picks out submatrices and then creates a separate output file for each submatrix. The loop works great, but I am having trouble getting all the separate output files written. The line I have is: write.table(ch1d,

(1) It seems to me that, generally, in R it is not possible to overload functions. Is that right? (2) Assuming that the above is true, or partially true, is there any extra packages to handle overloading in R? (3) Assuming (1) is TRUE and (2) is FALSE, can anyone provide some advice on developing some function that understand what the arguments are and then calls the right overloaded

Hi, I am trying to compile R-2.2.1 on Solaris 2.9 with a 64-bit build. Following the instructions in "R Installation and Adminstration", I changed the following settings in "config.site": CC="gcc -m64" F77="g77 -64" CXX="g++ -m64" LDFLAGS="-L/usr/local/lib/sparcv9 -L/usr/local/lib" But I got the following error messages: