Sorry for the basic question as I'm new in qiime2 and still learning. How can I choose two different columns when measuring beta diversity? I want to compare both the priming and Strain columns in my metadata file. Here is the code I used when selecting only one column:

Hello @Abdul, unfortunately, you can't run qiime diversity beta-group-significance with multiple columns. What you could do that achieves something similar with multiple columns is run qiime diversity adonis with strain + priming as your formula.

However, I could not interpret the results. I was expecting a pairwise analysis with different priming conditions vs the strain types. I selected the two columns (priming & strain) where I have different priming conditions and strains. I attached the output. is this the correct output of adonis? thanks for help!

R2 is your 'R squared' value and is just like an R2 value you would get from a linear regression, in that it explains what fraction of variance is captured by that predictor variable. (think effect size)

Pr(>F) is your p-value. As is tradition, you get to pick an alpha threshold, with both a=0.05 for 95% and a=0.01 for 99% being common.