On 11/21/2011 12:43 PM, jazevedo wrote:
Hello, all,
I'm a new R user (new to any programming language in general, really), so I
apologize if this is easy/has already been answered (I've attempted
searching online but did not understand the pages I found).
My data is stored in text files with the headers LANE, RNA_NAME, SEQ, and
SEQCNT. I've been using
x = "filename.txt"
y = aggregate(x$SEQCNT, list(x$RNA_NAME), sum)
write.table(y, "C:/path/filename.txt", sep="\t")
to generate an output that I've analyzed using readDGE in the edgeR package:
RNA Targets = read.delim("Targets.txt", stringsAsFactors = FALSE)
Targets
Files Groups
A.txt 1
B.txt 2
v = readDGE(Targets, skip = 5, comment.char = "!")
I've done this several times; until yesterday, it worked fine. Today,
however, an error message started cropping up after attempting readDGE:
Error in `colnames<-`(`*tmp*`, value = c("1", "2")) :
length of 'dimnames' [2] not equal to array extent
Hi -- looking at Targets, e.g., summary(Targets), str(Targets), might
point to input problems. traceback() after the error occurs might point
to problems in readDGE. Posting to the Bioconductor mailing list
http://bioconductor.org/help/mailing-list/
is appropriate for Bioconductor packages.
Martin
I've tried to figure this out with no luck, so absolutely any help would be
appreciated. Thank you all!
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