Hello All, I am trying to run normalization on the Illumina bead studio output file version 1.5.1.3 using the lumi package. Sine the original file is a huge file I am splitting it and reading it as a batch in the lumi package. This is where the problem begins.. it just seems to be not reading it.. but instead gives me an error : Error in m[rownames(x), colnames(x)] <- x : subscript out of bounds In addition: Warning message: In combine(x.lumi, x.lumi.i) : Two data sets have some duplicated sample names! I am using the lumiR.batch command on my file. I have checked it all but it seems to be not running at all.. Please help! -G -- View this message in context: http://r.789695.n4.nabble.com/Trouble-reading-Illumina-Bead-Studio-Ouput-file-tp3716854p3716854.html Sent from the R help mailing list archive at Nabble.com.