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nanoporetech / pychopper

A tool to identify, orient, trim and rescue full length cDNA reads
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Reorienting reads/flipping reverse reads. #14

Closed callumparr closed 5 years ago

callumparr commented 5 years ago

I was wondering the output in full_length_transcript.fq has the reads reoriented.

How should I supply the reads to minimap2, or include any flags such as -uf -ub ?

bsipos commented 5 years ago

Yes, the classified reads are re-oriented. You should use -uf with minimap2.

Botond