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» Multiple sequence alignment by quantum genetic algorithm
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BMCBI
2011
13 years 8 days ago
Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
Background: The Smith-Waterman algorithm for local sequence alignment is more sensitive than heuristic methods for database searching, but also more time-consuming. The fastest ap...
Torbjørn Rognes
BMCBI
2010
133views more  BMCBI 2010»
13 years 8 months ago
Improving de novo sequence assembly using machine learning and comparative genomics for overlap correction
Background: With the rapid expansion of DNA sequencing databases, it is now feasible to identify relevant information from prior sequencing projects and completed genomes and appl...
Lance E. Palmer, Mathäus Dejori, Randall A. B...
TSE
2010
197views more  TSE 2010»
13 years 3 months ago
A Genetic Algorithm-Based Stress Test Requirements Generator Tool and Its Empirical Evaluation
Genetic algorithms (GAs) have been applied previously to UML-driven, stress test requirements generation with the aim of increasing chances of discovering faults relating to networ...
Vahid Garousi
BMCBI
2007
164views more  BMCBI 2007»
13 years 8 months ago
SEARCHPATTOOL: a new method for mining the most specific frequent patterns for binding sites with application to prokaryotic DNA
Background: Computational methods to predict transcription factor binding sites (TFBS) based on exhaustive algorithms are guaranteed to find the best patterns but are often limite...
Fathi Elloumi, Martha Nason
CF
2008
ACM
13 years 10 months ago
Cell-SWat: modeling and scheduling wavefront computations on the cell broadband engine
This paper contributes and evaluates a model and a methodology for implementing parallel wavefront algorithms on the Cell Broadband Engine. Wavefront algorithms are vital in sever...
Ashwin M. Aji, Wu-chun Feng, Filip Blagojevic, Dim...