Has anyone used bwa (0.7.12) with the mem -x ont2d option on nanopore 2D reads? FAQ's in bwa doc says "BWM-MEM works with Oxford Nanopore reads with a sequencing error rate over 20%.
I've been able to create a .sam file with about 40,000 2d reads aligned to a single chromosome .fa file, but then have had issues seeing my data.
I've been able to create a .sam file with about 40,000 2d reads aligned to a single chromosome .fa file, but then have had issues seeing my data.
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