Question about the paired-end read trimming.

[chaibenl]

I wonder if you would confirm that the trimmed reads from the paired-end mode output are those that BOTH R1 and R2 match the trimming criteria. Thank you.

[marcelm]

Please see here: https://cutadapt.readthedocs.io/en/stable/guide.html#filtering-paired
Happy to answer in more detail if needed when I'm back from vacation next week.