Hi, i tried to use cutadapt in qiime2 for the sequences with different primers. They are paired-end sequences. I tried to use the trim-paired, as my fastq files are already in demux-paired-end.qza; but really not sure what to fill in with these *** showing below… i have around 20 primer sets in all my sequences.
$ qiime cutadapt trim-spaired
–output-dir /mnt/home/choiji22/jin_test/darte_file \
anybody has the same problems?