(error) qiime feature-classifier fit-classifier-naive-bayes

[Nicholas_Bokulich]

Hi @jww4557 ,
As you found, SILVA can be a bit challenging to work with (when starting with the raw source files).

This is why we made a plugin to automatically download and format data from SILVA (as well as other sources). Please see the tutorial here for using RESCRIPt:

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…

You can use that to create a custom database from SILVA.

Good luck!