search for: cuffdiff

Hi all, I'm having the same issue as in this previous post: http://r.789695.n4.nabble.com/R-error-td4200447.html#a4209042 And as another user of Biostar: http://www.biostars.org/post/show/42562/cummerbund-isnt-managing-cuffdiff-database/#42895 Whereby I'm trying to output cuffdiff data into cummeRbund, but it appears to be having issues with connection to a database (below). Does anyone have any suggestions as to how I can fix this? Thanks! cuff_data <- readCufflinks('/home/sbica1/tophat/finaltrans/tophat...

...al look at it.. here is the script I have been using # source of this code below #http://cran.r-project.org/doc/contrib/Lemon-kickstart/kr_scrpt.html # store the current directory initial.dir<-getwd() # change to the new directory setwd("/data/homes/ccpage/ngs/Argueso/Tophat/flocculated/cuffdiff/ fpkmgt") # source of this code below # https://stat.ethz.ch/pipermail/r-help/2008-March/158336.html files <- Sys.glob("*.csv") # get names of files to process #result <- numeric(length(files)) # preallocate assuming single value from each file for (i in seq_along(file...