Hello! I'm using DEseq2 to perform differential gene expression analysis between two conditions. When I normalized each group separately I find that one of the conditions has significantly larger dispersions in most genes. How can I preform a DEseq2 analysis while allowing a different dispersion rate for each group? (I would like to know how much this changes the results, to make sure the equal dispersions is a valid assumption).

Is there a way to do this in DEseq2, or using some other function after normalizing each group separately using DEseq2? Or should I revert to the original DEseq?

Thank you

There isn't a way to do this in DESeq2, you can find some posts about it by searching the support site.

https://www.google.com/search?q=site%3Asupport.bioconductor.org+deseq2+dispersion+per+group