gneiss balance-taxonomy & taxonomy issues

[thermokarst]

@nvtravan

I am not sure how to do this. Do I make a new taxonomy file from gg and set it at L6? Can I collapse the taxonomy file I already have to L6? I am going to try these approaches- but if anyone has fix, please let me know!

I think you are right, the issue here is that the FeatureTable[Frequency] IDs are the collapsed taxonomy strings, while the FeatureData[Taxonomy] IDs are still the hashed sequence values. We don't have a method in QIIME 2 currently to collapse the FeatureData[Taxonomy], so you will have to do that manually (I would write some kind of script for that, personally).

Taking a step back, why can't you use the uncollapsed table here?

Thanks!