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Commit 9f54f24c authored by Aaron's avatar Aaron
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Multiple changes. 

	1. Updated intersectBed, coverageBed and genomeCoverageBed to correctly compute alignment end coordinates in BAM.
	2. Changed the logic for handling BAM alignments in pairToBed
	3. Allowed the use of minMappingQuality or totalEdit distance in pairToBed.
parent b3a33c72
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