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Old 04-20-2017, 03:02 AM   #2
Location: Barcelona

Join Date: Nov 2014
Posts: 10


BreakDancer, Lumpy and many others are based on the clustering of discordant signals from mapping to the reference genome. In the case of translocations, any read-pair supporting it might have a read1 mapped to chromosome A, whilst the read2 (or mate) is mapped to chromosome B. Moreover, Lumpy and in general split-read/assembly based algorithms refine the coordinates when the reads span across the breakpoint.
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