Dear Helper, I am a new user of R package limma and I can't read my file target. I hav information all time like: library("arrayQuality") > library("limma") > library("marray") > targets <- readTargets("targets.txt", row.names="Name", path=workdir) > targets X.?F 1 NA 2 NA 3 NA 4 NA 5 NA 6 NA > workdir <- "D:/BIV hodowle" > setwd(workdir) > targets <- readTargets("targets.txt", row.names="Name", path=workdir) > targets X.?F 1 NA 2 NA 3 NA 4 NA 5 NA 6 NA Please help me what mean X.?F 1 NA ? I will be grateful for any help Aneta

Hi, Comments inline: On Sun, Dec 15, 2013 at 2:37 PM, Aneta Pluta <aneta.pluta at="" piwet.pulawy.pl=""> wrote: > Dear Helper, > I am a new user of R package limma and I can't read my file target. > I hav information all time like: > > library("arrayQuality") >> library("limma") >> library("marray") >> targets <- readTargets("targets.txt", row.names="Name", path=workdir) >> targets > X.?F > 1 NA > 2 NA > 3 NA > 4 NA > 5 NA > 6 NA Well, the above wouldn't work as you haven't set `workdir` before using it. I guess you are "paraphrasing" your code here, and this isn't the actual code you are using so it makes it a bit harder for people to help you. After you define workdir, as you do next: >> workdir <- "D:/BIV hodowle" please run the following code and paste the output: R> readLines(file.path(wordir, 'targets.txt')) If your 'targets.txt' file is in the place you thin it is in, then the command above will dump the contents of the file to the console. If it's not where you think it is, you should get an error. Either way, copy/paste the results from this command in your follow up email, please. My guess is that you are not pointing R to the right place to read this file, or this file is in an unexpected format. HTH, -steve -- Steve Lianoglou Computational Biologist Genentech