Hello,

I was analysing my microbiome data for Beta diversity. In order to understand the significance of the location on the microbial community, I applied two test i.e. Permanova to assess compositional difference and Betadisper to assess homogeneity.

Following are the results

PERMANOVA, p value is significant with R square of only 0.08 and beta disper test is not significant with F VALUE OF 0.3

As per my understanding, there is significant compositional dissimilarity, however, the differences in the diversity is not completely explained by the location (8percent) and each group has very similar or homogeneous composition.

So, I changed the parameter of location and used an another parameter,

Which gives me significant Permanova result with R square of O.2 and significant beta disper too with F VALUE OF 1.0

So my question is am I understanding my analysis in a right way?

Why R square value is so less?

How do I interpret F VALUE?

HELP.

Thank you.