I have a question related to the vsearch and the picrust2.
I noticed that in the Overview page of QIIME2 tutorial, there is a sentence:
q2-vsearchimplements three different OTU clustering strategies: de novo, closed reference, and open reference. All should be preceded by basic quality-score-based filtering and followed by chimera filtering and aggressive OTU filtering (the treacherous trio, a.k.a. the Bokulich method).
So my question is, which table.qza and rep-seqs.qza should we choose when we want to begin a picrust2 analysis? The two after the culster-features-closed-reference (table-cr-97.qza, rep-seqs-cr-97.qza) or the two finished the chimera filtering(table-cr-97-nonchimeric-wo-borderline.qza, rep-seqs-cr-97-nonchimeric-wo-borderline.qza)?
Not mean to disturb, just feel confused, hope you can help me.