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                                            effelsbn

High loss of CCS reads in filtering step

@cjfields Thank you! Indeed, the provided CCS were >QV20, so now it makes sense that so many reads were filtered out with my parameters. There is almost no filtering loss...

High loss of CCS reads in filtering step

@cjfields Yes, I think such an option for filterAndTrim would be great in the future. Should we leave this issue open as a feature request? Anyways, for now, I consider...

High loss of CCS reads in filtering step

Hi @nhg12 So in our case, we took CCS reads that were exported with a threshold of QV20 (~99% consensus) but minQ=3 which explained why such a large fraction of...