Hi all,
I am aligning pacbio reads to a reference genome using gmap. Do you know how to output an extended CIGAR in output sam file from gmap v 2016.08.10?
My command is:
Thanks in advance
I am aligning pacbio reads to a reference genome using gmap. Do you know how to output an extended CIGAR in output sam file from gmap v 2016.08.10?
My command is:
Code:
gmap -d gmapDB -D path/to/gmapDB/ reads.fasta -f samse > alignment.sam
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