Hi hi, another question on the trim.seqs command… I am analyzing MiSeq data and following the MiSeq SOP… I would like to do a quality control on my sequences however no .qual file is produced… How would one screen for sequences with a minimum quality score?

Thank you!

There is no way to do this presently. The problem is that there is no obvious method for deriving a consensus quality score. If you read the paper and go through the SOP as we describe, there really should be no need for consensus quality scores.


Hi Dr. Schloss,

Ah I see! Well thank you that clears things up!