Hi @ebolyen
Following up on that, one of my dada2 commands has been running for 10 days now (the one where I also didn’t remove the primers properly…). One of the samples within has 7 mil seq reads, while the rest have from 250 000 and below. Now I believe that’s why it is taking so long to run. Should I just let it run until it ends (is dada2 dealing with it?), or is there something I should have done before dada to lower the number of sequences to a more realistic value?
Thanks!