No reads quality in the result bam files

nanoporetech / megalodon

Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

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No reads quality in the result bam files #312

Closed yanchunzhang closed 2 years ago

yanchunzhang commented 2 years ago

Hi, why there is no reads quality in the bam files generated by megalodon? Is there any way to keep the reads quality?

Thanks, Yanchun

marcus1487 commented 2 years ago

Megalodon is in the process of being deprecated. I would recommend using guppy directly and then mapping with minimap2 for this feature.