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hsinnan75 / GSAlign

GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
MIT License
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MAF alignment score #16

Open agolicz opened 2 years ago

agolicz commented 2 years ago

Hi, I was wondering how is the MAF alignment score calculated exactly? I was hoping to use score filtering to remove smaller/secondary matches. Thanks, Agnieszka

hsinnan75 commented 2 years ago

The MAF alignment score is simply the number of identical bases aligned together in an alignment. But it is defined differently in other methods.