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Old 02-17-2012, 04:39 PM   #2
adaptivegenome
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Realignment is performed on a set of reads. If you merge two BAMs and add reads to a locus then realignment is needed. Same goes for marking duplicates or recalibrating bases.

Last edited by adaptivegenome; 02-17-2012 at 04:39 PM. Reason: typo
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