Is there a reason that the 'per-sample' dispersion calculation was discontinued for DESeq2? I am working with ASD samples which have been observed [ http://dx.doi.org/10.1371/journal.pone.0016715 ] to exhibit lower variance. I need to estimate the ASD and typical dispersion separately. Can I do this with DESeq2?
I can run
estimateDispersions(...) but that produces two dispersion vectors. How I'm not sure how to integrate these dispersion vectors into DESeq2. It seems like there is only room from one dispersion vector in the analysis.