Hello, I am currently using the longitudinal package to analyse pairwise differences between 2 groups (different diet) at 2 time-points (start and after 12 months). The pairwise-differences function works well on specific taxa, like here:
Doing a pairwise-analysis of bacteroidetes
qiime longitudinal pairwise-differences
Now I want to know whether it is possible to do the same for more taxa (optimally all) at the same time and ideally get an output table which shows p-values and differences etc. for each taxon instead of a visual output.
If not, is it maybe possible in phyloseq or other environments?
Thanks in advance, Jakob