Ah - sorry - upon re-reading your message, I realized I misunderstood
your question. So basically you want to make your LRT p-value one-sided;
I can see how that would be useful, e.g., when comparing to negative
controls in ChIP-seq or other technologies.
I've been doing it fairly simply,
Hi Dario,
I guess so - it would be a fairly easy extension of glmLRT - but why? I
can't think of many situations where a non-zero log-fold change is
expected under the null hypothesis. Mixture experiments, or correcting
for gene dosage due to copy number variants, perhaps.
Cheers,
Aaron
On
Good day,
In a future release, could the user be allowed to specify an alternative
hypothesis such as the coefficient being positive? DESeq2 provides an
altHypothesis parameter for such a purpose.
--
Dario Strbenac
University of Sydney
Camperdown NSW 2050
