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lh3 avatar lh3 commented on September 17, 2024

#33 should address MD if GACigarUnit:: contigSequence is properly set. An augmented CIGAR 3=2Xac3Dcgc3=, for example, is equivalent to 5M3D3M with MD 3AC^3CGC3, and should be easier to work with as we don't need to keep track of two strings. I proposed the MD tag but later considered it to be a bad design.

If we are happy with the MD solution in #33, we can close this issue.

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delagoya avatar delagoya commented on September 17, 2024

Consensus reached, issue is open for 5 days with no comments. Vote to close.

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dglazer avatar dglazer commented on September 17, 2024

I'm good with closing if @massie is. We will want a few examples explaining how the new GACigarUnit and contigSequence work, but that can be part of a later general doc task. (Matt, maybe a follow on to http://zenfractal.com/2013/06/19/playing-with-matches/ will make sense at some point?)

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massie avatar massie commented on September 17, 2024

+1

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