I would like to perform pairwise comparison on single pair of samples. This is, if I have 7 samples from S0 to S6, compare them as indicated below to see how much the microbial communities differ between them:
The samples are from the same ‘environment’ but they have been collected at different time points.
I am unsure which is the best test for doing this. Maybe pairwise difference comparisons using unweighted unifrac pcoa results (however I would just have one single sample in each group)? Or what would be the most appropriate option?
Thank you a lot in advance.