Question: Normalized Smith-Waterman Formula
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gravatar for  '
3.2 years ago by
'170
'170 wrote:

I found the following formula for normalizing Smith-Waterman scores, I know that p1 and p2 refer to first and second proteins, but I do not understand what SW(p1,p2) refers to. Can somebody please explain?

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smith-waterman • 1.1k views
ADD COMMENTlink modified 3.0 years ago by Biostar ♦♦ 20 • written 3.2 years ago by '170
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gravatar for Jean-Karim Heriche
3.2 years ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche19k wrote:

Hard to tell without context but my guess is that SW stands for Smith-Waterman so you normalize the score by the product of the square roots of the score of each protein aligned to itself.

ADD COMMENTlink written 3.2 years ago by Jean-Karim Heriche19k
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