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» Programming an interpreter using molecular dynamics
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IPPS
2007
IEEE
14 years 2 months ago
Analysis of a Computational Biology Simulation Technique on Emerging Processing Architectures
1 Multi-paradigm, multi-threaded and multi-core computing devices available today provide several orders of magnitude performance improvement over mainstream microprocessors. These...
Jeremy S. Meredith, Sadaf R. Alam, Jeffrey S. Vett...
CONSTRAINTS
2008
95views more  CONSTRAINTS 2008»
13 years 8 months ago
Efficient Sequence Alignment with Side-Constraints by Cluster Tree Elimination
Aligning DNA and protein sequences is a core technique in molecular biology. Often, it is desirable to include partial prior knowledge and conditions in an alignment. Going beyond...
Sebastian Will, Anke Busch, Rolf Backofen
JCB
2002
111views more  JCB 2002»
13 years 8 months ago
A General Edit Distance between RNA Structures
Arc-annotated sequences are useful in representing the structural information of RNA sequences. In general, RNA secondary and tertiary structures can be represented as a set of ne...
Tao Jiang, Guohui Lin, Bin Ma, Kaizhong Zhang
ICFP
2009
ACM
14 years 9 months ago
Non-parametric parametricity
Type abstraction and intensional type analysis are features seemingly at odds--type abstraction is intended to guarantee parametricity and representation independence, while type ...
Georg Neis, Derek Dreyer, Andreas Rossberg
DATE
2006
IEEE
123views Hardware» more  DATE 2006»
14 years 2 months ago
Constructing portable compiled instruction-set simulators: an ADL-driven approach
Instruction set simulators are common tools used for the development of new architectures and embedded software among countless other functions. This paper presents a framework th...
Joseph D'Errico, Wei Qin