See also
OTU / denoising
pipeline
Read preparation
Quality control: stand duplicates
Sometimes, unpaired reads have sequences on both strands. See
strand duplicates for how to check. If you
have reads on both strands, then use the orient
command with the largest available database.
Example
usearch -orient reads.fq -db silva.udb -fastqout oriented.fq -tabbedout
orient.txt