Question: q values p values from Cuffdiff are same for different samples
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gravatar for brainaneurysm1
2.0 years ago by
brainaneurysm10 wrote:

I ran some human samples for mapping with BWA, Cufflinks, and Cuffdiff. When I looked at significantly regulated genes, q values p values from Cuffdiff are same for different samples. Does anyone have the same problem?

Thanks in advance

ADD COMMENTlink modified 2.0 years ago by Jennifer Hillman Jackson25k • written 2.0 years ago by brainaneurysm10
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gravatar for Jennifer Hillman Jackson
2.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Two different experiments produced the exact same values (assuming you are comparing by gene_name identifier)? This sounds like a data mixup. Are you certain the original sample inputs were not the same content? I can't think if any other way you would have the exact same values for two distinct complete runs (even replicates will have some variation).

Jen, Galaxy team

ADD COMMENTlink written 2.0 years ago by Jennifer Hillman Jackson25k
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