Me again -
I am attempting to compare taxonomic differences between 3 groups as a result of a given treatment. When I look at my initial data - their microbiomes are very heterogenous - therefore, I’m trying to do pairwise comparisons. I’ve followed the q2 tutorial and I’ve been able to successfully look at alpha and beta diversity, however, I am having a hard time coming up with a suitable method for looking at taxonomic differences between groups as a result of treatment as their starting microbiomes were all so different. Any advice?