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mengyao / Complete-Striped-Smith-Waterman-Library

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what should I do if I don't want to alignment result with soft clip sequence("S")? #54

Closed ydLiu-HIT closed 2 years ago

ydLiu-HIT commented 6 years ago

If I want to align sequence A to sequence B, and I want to do global alignment rather than local alignment, so what can I do to prevent the alignment result with soft clip("S" in the begin or the end of sequence A)?

Thank you!!!

jeffdaily commented 6 years ago

SSW is great for local alignment. But if you’re looking for something similar for global alignment perhaps try https://github.com/jeffdaily/parasail.

ydLiu-HIT commented 6 years ago

Thanks for your help. SSW is a great job for local alignment and I am using. AND I suggest that your group can add some functions which can do global or semi-local alignment, or provide a parameter for users to choose. This is just a small suggestion, Thank you.