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ICCS
2001
Springer
13 years 10 months ago
High-Performance Algorithm Engineering for Computational Phylogenetics
Abstract. Phylogeny reconstruction from molecular data poses complex optimization problems: almost all optimization models are NP-hard and thus computationally intractable. Yet app...
Bernard M. E. Moret, David A. Bader, Tandy Warnow
ICESS
2004
Springer
13 years 11 months ago
Relating FFTW and Split-Radix
Recent work showed that staging and abstract interpretation can be used to derive correct families of combinatorial circuits, and illustrated this technique with an in-depth analys...
Oleg Kiselyov, Walid Taha
BMCBI
2008
99views more  BMCBI 2008»
13 years 5 months ago
Multiple organism algorithm for finding ultraconserved elements
Background: Ultraconserved elements are nucleotide or protein sequences with 100% identity (no mismatches, insertions, or deletions) in the same organism or between two or more or...
Scott Christley, Neil F. Lobo, Gregory R. Madey
CEC
2010
IEEE
13 years 6 months ago
Iterated local search vs. hyper-heuristics: Towards general-purpose search algorithms
An important challenge within hyper-heuristic research is to design search methodologies that work well, not only across different instances of the same problem, but also across di...
Edmund K. Burke, Timothy Curtois, Matthew R. Hyde,...
TVLSI
2008
90views more  TVLSI 2008»
13 years 5 months ago
A Special-Purpose Architecture for Solving the Breakpoint Median Problem
Abstract--In this paper, we describe the design for a co-processor for whole-genome phylogenetic reconstruction. Our current design performs a parallelized breakpoint median comput...
Jason D. Bakos, Panormitis E. Elenis