Truncating alignments in a SAM/BAM file
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9 months ago
everj • 0

Hi everyone,

I am interested in narrowing or truncating the alignment of reads in SAM or BAM formatted files by X NTs from each end. My reason is that the detection of indels is a bit muddied by a percentage of reads reaching into or across indels which may be poor alignments even after quality aligned reads trimming and removing clipped reads.

Any suggestions would be appreciated.

Thanks!
John

Alignment SAM BAM • 353 views
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