Question: Is the score from genewise and exonerate normalized by protein length?
gravatar for dukecomeback
9 months ago by
dukecomeback30 wrote:

Hi, I want to cutoff the results by scores, but I hope there would be no length bias.

alignment • 272 views
ADD COMMENTlink modified 9 months ago by Jean-Karim Heriche15k • written 9 months ago by dukecomeback30
gravatar for Jean-Karim Heriche
9 months ago by
EMBL Heidelberg, Germany
Jean-Karim Heriche15k wrote:

From the exonerate documentation:

Alignment Scores
Currently, only the raw alignment scores are displayed. This score just is the sum of transistion scores used in the dynamic programming. For example, in the case of a Smith-Waterman alignment, this will be the sum of the substitution matrix scores and the gap penalties.

ADD COMMENTlink written 9 months ago by Jean-Karim Heriche15k
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