Hello everyone,
Is there a way to suppress BWA to output all suboptimal alignments, as shown in "X1" tag. All I need is is the alignment shown for the "X0" tag.
Some of my multi-mapped read had only 8 "best alignments", but over 10,000 "suboptimal alignments". All I want is just these 8 "best alignments", but BWA appears to write all over ten thousand alignment locations. This makes the alignment to run much slower, and takes a lot of hard drive space.
Best regards,
Hui
Is there a way to suppress BWA to output all suboptimal alignments, as shown in "X1" tag. All I need is is the alignment shown for the "X0" tag.
Some of my multi-mapped read had only 8 "best alignments", but over 10,000 "suboptimal alignments". All I want is just these 8 "best alignments", but BWA appears to write all over ten thousand alignment locations. This makes the alignment to run much slower, and takes a lot of hard drive space.
Best regards,
Hui
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