I have some issues regarding how I can present the results of B-diversity analyses.
I computed Unifrac metrics, and according to the results of AMOVA, I have differences between some of my groups.
The results of HOMOVA also tell me that the groups that are different with AMOVA also have heterogenous variance (which is not really a good new…)
The biplot is not very great due to the high variance I guess. I don’t see which groups are supposed to be different. Is there another way to present the B-diversity? Or PCOA/NMDS are ok because I have small p-value with AMOVA?
Also, I am shy to ask, but how can I find out which group has the higher B-diversity, between 2 groups that are different, according to the AMOVA?
Thanks a lot!