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Traceback inaccurate with gap open costs #9

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Daniel-Liu-c0deb0t opened this issue May 26, 2022 · 1 comment
Open

Traceback inaccurate with gap open costs #9

Daniel-Liu-c0deb0t opened this issue May 26, 2022 · 1 comment

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@Daniel-Liu-c0deb0t
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Daniel-Liu-c0deb0t commented May 26, 2022

Need to keep track of traceback for the gap matrices (whether continuing or opening a gap). Currently, following gap transitions just end up on an entry in the dp matrix (not the gap matrices) even if its continuing a gap.

@RagnarGrootKoerkamp
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As an example, when aligning AC and AACC with cost model (sub=1, open=1, extend=1), triple_accel correctly returns cost 3, but the cigar is X=X= instead of =XX=.

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