exclude-seqs: Exclude sequences by alignment

[Nicholas_Bokulich]

@dwt

I believe blast is fine with the reverse complement, but it will ruin the phylogeny.

quick side-note: RESCRIPt (a relatively new plugin) can be used to fix read orientation prior to classification or alignment/tree-building:
https://library.qiime2.org/plugins/rescript/27/

Processing, filtering, and evaluating the SILVA database (and other reference sequence data) with RESCRIPt

Please consider this tutorial a living document, which may change based upon community feedback and ongoing plugin development. RESCRIPt RESCRIPt (REference Sequence annotation and CuRatIon Pipeline) is a python package and QIIME 2 plugin for formatting, managing, and manipulating sequence reference databases. This package was designed for compiling, manipulating, and evaluating sequence reference databases from SILVA, NCBI, Greengenes, GTDB, and other sources, and for construc…