I’m trying to use q2-boots for a project where I’m updating my rarefaction. Typically, I calculate a single table and then use it as the basis of all of my diversity calculations. (Computational effeciency and consistency FTW). I just want to check if I can still do this iwth the new q2-boots model. that if I rarefy my table into a collection, run it through q2-diveristy to calculate my alpha and beta, that I can still pool my data without losing the provenance.
Yes! Providing the folder should be sufficient, although you are stuck with the order the filsystem gives. If you don't want this, you can create a .order file inside that directory and provide the filenames in the order you want, 1 filename per line.