Hi,
I have a SAM file with the alignment score tag (AS) set appropriately (mapped by BWA-SW). I want to filter out all alignments with an alignment score (note: not mapping quality) less than a threshold. samtools doesn't seem to have this feature. Do you know of a software package that does?
Thanks,
Shaun
I have a SAM file with the alignment score tag (AS) set appropriately (mapped by BWA-SW). I want to filter out all alignments with an alignment score (note: not mapping quality) less than a threshold. samtools doesn't seem to have this feature. Do you know of a software package that does?
Thanks,
Shaun
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