Plugin error from feature-classifier for invalid character

[SoilRotifer (Mike Robeson)]

Hi @microbiomeAnalyst,

The sequences you download from SILVA are in the form of RNA not DNA, as suggested by the error:

@microbiomeAnalyst

ValueError: Invalid character in sequence: b’U’.

Fortunately we have a great plugin which can handle FeatureData[RNASequence] and convert them to DNA (FeatureData[Sequence]) and prepare SILVA data for use as a reference sequence / taxonomy database:

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…

-Take it for a spin!
-Mike