Hi, all! I'm currently working with 16S V3-V4 region data. I supposed to do dada2 denoise-paired, but most of samples are filtered out on merge stage, so I decided to only use forward read. Below is the quality of sequence and command for dada2.
qiime dada2 denoise-single
But after running it without any error message, I got below result:
Almost all of sample reads are filtered out even if I changed --p-max-ee value (25~30). Before running it, input sequences are quality filtered with command below (so I used the filtered-sequences.qza file for denoise-single from below job)
qiime quality-filter q-score
Any idea I can resolve it?
Thank you in advance!