PATTERNHUNTER II: HIGHLY SENSITIVE AND FAST HOMOLOGY SEARCH
MING LI(University of Waterloo), BIN MA(Western University), Derek Kisman(Bioinformatics Solutions (Canada)), John Tromp(Centrum Wiskunde & Informatica)
Cited by 231
Abstract
Extending the single optimized spaced seed of PatternHunter(20) to multiple ones, PatternHunter II simultaneously remedies the lack of sensitivity of Blastn and the lack of speed of Smith-Waterman, for homology search. At Blastn speed, PatternHunter II approaches Smith-Waterman sensitivity, bringing homology search methodology research back to a full circle.
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