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Add SAM recommendation of MAPQ=0 for unmapped reads #753

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Add SAM recommendation of MAPQ=0 for unmapped reads #753

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Commits on Jan 29, 2024

  1. Add SAM recommendation of MAPQ=0 for unmapped reads 

    We already have a recommendation that MAPQ of 255 should not be used.
Expand on this to recommend zero is used when unmapped.

This is purely a recommendation, made for maximum compatibility, and
not a specification requirement.

Fixes samtools#727
    @jkbonfield
    jkbonfield committed Jan 29, 2024
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