I have a gut microbiome dataset from a clinical trial. It is a pre-post trial with 2 groups: placebo, synbiotic.
I would like to find the compare the change in the taxonomy of the two groups. I understand that ancom analyzing does it but it does it only for a single group[placebo or synbiotic]. I wish to do ancom analysis to find a relative change in the synbiotic group with respect to the placebo group.
I was not able to do it using paired differences. Is there any other method/plugins which I can use? I tried to find it in the forum but could not find it.