Question: Cuffdiff Output/Cummerbund
gravatar for Kaustubh
8.8 years ago by
Kaustubh0 wrote:

Hi everyone,

I want to analyze data using cummeRbund but I'm having problem with cuffdiff output. I don't get any entries in the geneid and gene columns in the output files of cuffdiff. Also all the other files except isoformexp.diff, isoform.FPKM_tracking are blank. When I specify file into the cummeRbund, I get following output, {CuffSet instance with: 2 samples 0 genes 0 isoforms 0 TSS 0 CDS 0 promoters 0 splicing 0 relCDS} What might be the problem here? I would really appreciate any help in this regard. Thanks in advance!

cummerbund cuffdiff • 3.0k views
ADD COMMENTlink modified 3.2 years ago by Biostar ♦♦ 20 • written 8.8 years ago by Kaustubh0

This is a bit late but I'm having the same problem using SE data without replicates.

ADD REPLYlink written 8.5 years ago by A. Domingues2.4k
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