Could you please help me to understand what is the difference between Permutational multivariate analysis of variance (PERMANOVA,adonis) and Variance partitioning (permutest).
I understood that permutest is used to confirm the PERMANOVA result that differences in PERMANOVA is not due to dispersion.
###adonis_calculation
BC <- phyloseq::distance(phyloseq_prop, "bray")
pmv =adonis(BC ~Season*Region, as(sample_data(physeqN3), "data.frame"),permutations = 5000)
pmv
Call:
adonis(formula = BC ~ Season * Region, data = as(sample_data(physeqN3), "data.frame"), permutations = 5000)
Permutation: free
Number of permutations: 5000
Terms added sequenti
Total 99 19.8578 1.00000 ally (first to last)
Df SumsOfSqs MeanSqs F.Model R2 Pr(>F)
Season 1 1.8586 1.85862 12.036 0.09360 2e-04 ***
Region 1 2.4218 2.42183 15.682 0.12196 2e-04 ***
Season:Region 1 0.7522 0.75222 4.871 0.03788 2e-04 ***
Residuals 96 14.8251 0.15443 0.74656
Many thanks