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Question: rRNA FPKM values all are zero
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gravatar for xusisiyu
17 months ago by
xusisiyu • 0
xusisiyu • 0 wrote:

Hi, I have used Tophat2 and cuffdiff to analyze the S.cerevisiae RNA-seq data. But the rRNA FPKM values produced by cuffdiff all are zero although there are many reads that mapped to the rRNA locus. Could you please tell me the possible reason of this? Thank you very much, Best wishes, Siyu
rna-seq fpkm cuffdiff • 346 views
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modified 16 months ago by Jennifer Hillman Jackson ♦ 25k • written 17 months ago by xusisiyu • 0
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gravatar for Jennifer Hillman Jackson
16 months ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Check the "Test status" field of the output. This will inform about what the underlying problem is with the data.

http://cole-trapnell-lab.github.io/cufflinks/cuffdiff/#differential-expression-tests

Thanks, Jen, Galaxy team
ADD COMMENT • link written 16 months ago by Jennifer Hillman Jackson ♦ 25k
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