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» Semi-local string comparison: algorithmic techniques and app...
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153
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PSB
2003
15 years 5 months ago
MAP: Searching Large Genome Databases
A number of biological applications require comparison of large genome strings. Current techniques suffer from both disk I/O and computational cost because of extensive memory req...
Tamer Kahveci, Ambuj K. Singh
CPM
2005
Springer
206views Combinatorics» more  CPM 2005»
15 years 10 months ago
A Fast Algorithm for Approximate String Matching on Gene Sequences
Abstract. Approximate string matching is a fundamental and challenging problem in computer science, for which a fast algorithm is highly demanded in many applications including tex...
Zheng Liu, Xin Chen, James Borneman, Tao Jiang
152
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IWOCA
2009
Springer
132views Algorithms» more  IWOCA 2009»
15 years 11 months ago
Fast Convolutions and Their Applications in Approximate String Matching
We develop a method for performing boolean convolutions efficiently in word RAM model of computation, having a word size of w = Ω(log n) bits, where n is the input size. The tech...
Kimmo Fredriksson, Szymon Grabowski
148
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ALGORITHMICA
2005
195views more  ALGORITHMICA 2005»
15 years 4 months ago
Bit-Parallel Witnesses and Their Applications to Approximate String Matching
We present a new bit-parallel technique for approximate string matching. We build on two previous techniques. The first one, BPM [Myers, J. of the ACM, 1999], searches for a patte...
Heikki Hyyrö, Gonzalo Navarro
SIGMOD
2010
ACM
228views Database» more  SIGMOD 2010»
15 years 9 months ago
Probabilistic string similarity joins
Edit distance based string similarity join is a fundamental operator in string databases. Increasingly, many applications in data cleaning, data integration, and scientific compu...
Jeffrey Jestes, Feifei Li, Zhepeng Yan, Ke Yi