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#722 will improve many components of the Scramble caller, including more accurate SVLEN estimation. The following figures summarize the new method, which takes into account alignment position and orientation of the split-read consensus sequence against the MEI reference.
Method overview:
Trivial approach (old method):
New approach, when one side of the breakpoint is identified:
New approach, when both sides of the breakpoint are identified:
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#722 will improve many components of the Scramble caller, including more accurate SVLEN estimation. The following figures summarize the new method, which takes into account alignment position and orientation of the split-read consensus sequence against the MEI reference.
Method overview:
Trivial approach (old method):
New approach, when one side of the breakpoint is identified:
New approach, when both sides of the breakpoint are identified:
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