Thank you for sharing that tutorial @Rob_DNA! I appreciate you recommending a quality check and further truncation with DADA2 after ITSxpress, as I was under the impression no more trimming/truncation was necessary afterwards and that DADA2 was just for de-noising/ASVs.
I appreciate knowing I shouldn't truncate to a fixed length. The script I'm referencing does exactly that at 249bp (regardless of the interactive quality plot results). However, my quality doesn't drop for forward reads, so I didn't want to do that. (My reverse are <30 so I'm only using forward)
demux_seqs.qzv (334.3 KB)
(My samples are low biomass, please disregard the low reads per sample if you look)