[BioC] Testing for no change in RNA-seq data?

Albyn Jones jones at reed.edu
Thu Mar 21 01:15:36 CET 2013

see "tests of equivalence", a common one being the TOST,
aka two one-sided tests.  you need to have a substantive
definition of equivalence!


On 2013-03-20 17:05, Ryan C. Thompson wrote:
> Hi all,
> So, we have several great packages for testing for evidence of
> differential expression using RNA-seq counts, and I am happily using
> those. However, I would like to know if there is any method for
> testing for evidence of equivalent expression. That is, I would like
> to show with some level of confidence that treatment X has no (or
> negligible) effect on gene Y. Is there any way to conduct such a 
> test?
> I know I can test for differential expression and see if the gene
> list comes up empty, but lack of evidence for differential expression
> is not the same as evidence for equivalent expression. So, are there
> any packages for doing equivalence testing on gene expression data? 
> If
> it exists for limma, then I'm happy to run my data through voom to
> analyze it if necessary.
> Thanks,
> -Ryan Thompson
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