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Allow hard-clipping and BAM input with --aligned-sam #378

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jeffreybarrick opened this issue Aug 19, 2024 · 0 comments
Open

Allow hard-clipping and BAM input with --aligned-sam #378

jeffreybarrick opened this issue Aug 19, 2024 · 0 comments
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feature-request

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@jeffreybarrick
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Long read aligners often output CIGAR strings with 'H' and current these are not handled.

One should also be able to input BAM files in addition to SAM files with this option.
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