Pair consensus decoding for sequences with the same UMI about bonito HOT 3 OPEN

Hey @cnk113

Yes, we take the reverse complement by default but as you have found it's an easy modification if you want to try the approach with multiple copies of the same strand. Only pairs are supported right now so I think your POA strategy is a good one.

HTH,

Chris.

from bonito.

Hi

We are also very interested in this and have multiple reads with the same UMI where some are forward and some are reverse. Guess the strand info could be integrated into the pairs.csv. Would be more convenient than having two versions of pair.py.
At the NCM they were talking about Q30 for three reads. Do you have an idea about when a Bonito update will be available that accepts more than two reads for an UMI ?

Thanks,

Rainer

from bonito.

The multi-dimensional calling work is at an earlier stage and needs improvements to usability and performance before it is ready for release; be assured that we're really keen to get this method released. We were excited by the early results and wanted share; expecting further accuracy gains once the work is integrated into our base callers.

Best wishes,

TimM.

from bonito.