Hi all,-
I want to compare logFC value from the output of exactTest function in
edgeR
for two different comparisons for each gene. So I have 4 conditions
and I
am testing if logFC for conditions 1 and 2 in that order is the same
as
logFC for conditions 3 and 4 in that order. What will be the right
statistical test and is there a function in R to do this?
Thanks
Al
[[alternative HTML version deleted]]
Dear Al,
Use edgeR glm (glmFit), and do a likelihood ratio test (glmLRT) of the
appropriate contrast.
Best wishes
Gordon
> Date: Thu, 4 Jul 2013 04:20:17 -0500
> From: Alpesh Querer <alpeshq at="" gmail.com="">
> To: Bioconductor mailing list <bioconductor at="" r-project.org="">
> Subject: [BioC] Comparing log FC edgeR
>
> Hi all,-
>
> I want to compare logFC value from the output of exactTest function
in edgeR
> for two different comparisons for each gene. So I have 4 conditions
and I
> am testing if logFC for conditions 1 and 2 in that order is the same
as
> logFC for conditions 3 and 4 in that order. What will be the right
> statistical test and is there a function in R to do this?
>
> Thanks
> Al
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