normal pass / fail rate? about deepconsensus

[AndrewCarroll]

Hi @AlcaArctica

A ~50% rate of CCS molecules failing Q20 filters seems not far from expectations for Sequel II SMRT cells. It might be slightly on the higher side of normal, and that could be explained if the read lengths are a bit longer than typical (closer to 20kb versus 15kb), or if the number of passes is for some other reason on the lower side.

I suspect the poorer assembly isn't due to anything in the deepconsensus run, but instead relates to either the genome being complex to assemble or something that would benefit from more coverage than you have.

[AlcaArctica]

Thank you, that is reassuring! I think this issue can be closed then. I will continue to explore my assembly workflow.