3. PERMANOVA vs adonis2 in R
3.1 Compare example output
PERMANOVA vs 'adonis2' It is instructive to look at a particular example. Let's compare the resul...
3.2 Results don't match
When we compare the output obtained using the two different pieces of software, we can see that t...
3.3 How does PERMANOVA do it?
Following the PERMANOVA table of results, a suite of key additional details regarding the analysi...
3.4 How does adonis2 do it?
The adonis2 function (in the vegan package in R) will provide a partitioning of the total sum of ...
3.5 What about $R^2$ values?
Another clear difference between the output given by adonis2 by comparison with the output given ...
3.6 Summarising the comparison
In summary: I recommend using PERMANOVA in PRIMER. I do not recommend using adonis2 in R. Except...