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» Algorithms on Compressed Strings and Arrays
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BMCBI
2008
214views more  BMCBI 2008»
14 years 9 months ago
Accelerating String Set Matching in FPGA Hardware for Bioinformatics Research
Background: This paper describes techniques for accelerating the performance of the string set matching problem with particular emphasis on applications in computational proteomic...
Yoginder S. Dandass, Shane C. Burgess, Mark Lawren...
ESA
1998
Springer
169views Algorithms» more  ESA 1998»
15 years 1 months ago
Augmenting Suffix Trees, with Applications
Information retrieval and data compression are the two main application areas where the rich theory of string algorithmics plays a fundamental role. In this paper, we consider one ...
Yossi Matias, S. Muthukrishnan, Süleyman Cenk...
TIP
2002
132views more  TIP 2002»
14 years 9 months ago
3-D wavelet compression and progressive inverse wavelet synthesis rendering of concentric mosaic
Using an array of photo shots, the concentric mosaic offers a quick way to capture and model a realistic three-dimensional (3-D) environment. In this work, we compress the concentr...
Lin Luo, Yunnan Wu, Jin Li, Ya-Qin Zhang
STOC
2000
ACM
117views Algorithms» more  STOC 2000»
15 years 2 months ago
Faster suffix tree construction with missing suffix links
Abstract. We consider suffix tree construction for situations with missing suffix links. Two examples of such situations are suffix trees for parameterized strings and suffix trees...
Richard Cole, Ramesh Hariharan
BMCBI
2010
143views more  BMCBI 2010»
14 years 7 months ago
A genome alignment algorithm based on compression
Background: Traditional genome alignment methods consider sequence alignment as a variation of the string edit distance problem, and perform alignment by matching characters of th...
Minh Duc Cao, Trevor I. Dix, Lloyd Allison