This is a test version of Biostars. For the public version, visit https://www.biostars.org.
extracting unmapped reads from PAF file

Hi, I used minimap2 -cx asm5 -t 8 $1 $2 > $3 and it generated a PAF file. How is it possible to extract unmapped reads?

Thank you in advance,

alignment mapping

If I am not mistaken, minimap2 does not output unmapped reads in paf format.

Is it possible that minimap2 output sam or bam files?

0 answers

No answers yet.

Log in to answer this question.