Constrained ordination (CAP) pairwise ANOVA Is there any way to perform pairwise ANOVA test from Constrained ordination for multiple factors in a variable?
e.g. I am trying to figure out whether microbial communities among five plant genotypes are different in their composition. I am performing constrained ordination using capscale using 'vegan' package in R.
My model is like this: (in R code)
    CAP=capscale(vegdist(asv_tab,method ="cao")~
                    Condition(Experiment)+Genotype+Condition(plate),
                    data = metadata)

Here I am removing the effect of experiment and plates using Condition and I am interested in plotting the effect of Genotypes on microbial communities.
When I run anova(CAP,permutations=999), I'm getting only the effect of genotype as a factor, but not individual genotypes. If I want to retrieve the results of individual comparison of each levels of the genotype, is there any command in this constrained ordination?
Appreciate your help!

And what about using Multivariate Analysis of Variance Using Distance Matrices (i.e. function adonis in the package vegan) followed by a wrapper function pairwise.adonis?
