Hi,
I would like to add another beta diversity metrics (aitchison) to rarefaction analyses by q2 boots beta and I am wondering whether I can reuse the previous rarefaction tables produced by q2 boots core-metrics.
There are the --recycle-pool TEXT and --use-cache DIRECTORY options available. Would any of these allow reusing the rarefaction tables?
Thanks for your suggestions,
Best regards
Hi @arwqiime,
Unfortunately, this is not currently possible. We have an issue open for this but I don't think anyone on our team has the bandwidth for this issue right now so I don't have an estimate on when this will be addressed. support alpha/beta diversity actions starting from resampled tables · Issue #63 · qiime2/q2-boots · GitHub
I have recently run into this issue for one of my analysis, there is a way to work around this but its alittle 'hacky' and requires you to run QIIME 2 in python. If that is something you are interested in, I can share my script with you.
Sorry to not have better news.
Hi @cherman2
Thank you for the answer. I can live with the independent q2 boots beta step for Aitchison distance.
Best,