Hello there. I am processing data for deblur from 16S (515F-926R) forward and reverse reads. I have merged the two sets and am now trying to filter the merged reads by quality with this script:
nohup qiime quality-filter q-score
--i-demux 2_years_trimmed-joined/merged_sequences.qza
--p-min-quality 30
--o-filtered-sequences 2_years_Bacteria-merged-filtered.qza
--o-filter-stats 2_years_Bacteria-merged-filter-stats.qza
--verbose &
The visualization 2_years_Bacteria-merged-filtered.qzv (340.5 KB), however, stills shows merged reads that fall below the threshold.
Is there something that went wrong or a quirk of the quality-filter command?