Hello,
I have used q2-gemelli with my datasets because the view on feature rankings and feature loadings via q2-qurro were quite helpful with some datasets.
I have now seen the preprint of Pat Schloss at https://www.biorxiv.org/content/10.64898/2026.01.06.697977v2 raising some questions about Aitchison PCA and pointing to advantages of using rarefaction instead. I will certainly follow these discussions, but I do have two questions for now:
@cmartino : Is there an update of q2-gemelli available with an revised simulation code?
@gregcaporaso : Is q2-boots already able to perform rarefaction analyses as suggested by Pat Schloss? I assume yes via --p-replacement / --p-no-replacement, right?
Thank you all for your great tools! I would love to see that the best from different ‘worlds’ would merge sometime…
Best regards