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» A Comparison of RESTART Implementations
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AOSD
2008
ACM
14 years 11 months ago
Modularity first: a case for mixing AOP and attribute grammars
We have reimplemented the frontend of the extensible AspectBench Compiler for AspectJ, using the aspect-oriented meta-compiler JastAdd. The original frontend was purely object-ori...
Pavel Avgustinov, Torbjörn Ekman, Julian Tibb...
BMCBI
2008
77views more  BMCBI 2008»
14 years 10 months ago
SeqAn An efficient, generic C++ library for sequence analysis
Background: The use of novel algorithmic techniques is pivotal to many important problems in life science. For example the sequencing of the human genome [1] would not have been p...
Andreas Döring, David Weese, Tobias Rausch, K...
JCB
2006
124views more  JCB 2006»
14 years 9 months ago
The Average Common Substring Approach to Phylogenomic Reconstruction
We describe a novel method for efficient reconstruction of phylogenetic trees, based on sequences of whole genomes or proteomes, whose lengths may greatly vary. The core of our me...
Igor Ulitsky, David Burstein, Tamir Tuller, Benny ...
BMCBI
2004
150views more  BMCBI 2004»
14 years 9 months ago
SS-Wrapper: a package of wrapper applications for similarity searches on Linux clusters
Background: Large-scale sequence comparison is a powerful tool for biological inference in modern molecular biology. Comparing new sequences to those in annotated databases is a u...
Chunlin Wang, Elliot J. Lefkowitz
BMCBI
2011
14 years 1 months ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...