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Does GraphMap consider hard-clipping? #86

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npavlovikj opened this issue Feb 22, 2018 · 0 comments
Open

Does GraphMap consider hard-clipping? #86

npavlovikj opened this issue Feb 22, 2018 · 0 comments

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@npavlovikj
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Hi,

I can see that GraphMap performs soft-clipping on the alignment, but I haven't observed any hard-clipping so far in neither the code nor my alignments.
Does this mean that hard-clipping is not considered in the alignment and I can not observe "H" in the cigar output?

Thank you,
Natasha

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