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SAC
2009
ACM
15 years 10 months ago
GTfold: a scalable multicore code for RNA secondary structure prediction
The prediction of the correct secondary structures of large RNAs is one of the unsolved challenges of computational molecular biology. Among the major obstacles is the fact that a...
Amrita Mathuriya, David A. Bader, Christine E. Hei...
BMCBI
2010
132views more  BMCBI 2010»
15 years 3 months ago
Data structures and compression algorithms for high-throughput sequencing technologies
Background: High-throughput sequencing (HTS) technologies play important roles in the life sciences by allowing the rapid parallel sequencing of very large numbers of relatively s...
Kenny Daily, Paul Rigor, Scott Christley, Xiaohui ...
TACAS
2010
Springer
210views Algorithms» more  TACAS 2010»
15 years 10 months ago
Automatic Analysis of Scratch-Pad Memory Code for Heterogeneous Multicore Processors
Modern multicore processors, such as the Cell Broadband Engine, achieve high performance by equipping accelerator cores with small “scratchpad” memories. The price for increase...
Alastair F. Donaldson, Daniel Kroening, Philipp R&...
SC
2000
ACM
15 years 8 months ago
Dynamic Software Testing of MPI Applications with Umpire
As evidenced by the popularity of MPI (Message Passing Interface), message passing is an effective programming technique for managing coarse-grained concurrency on distributed com...
Jeffrey S. Vetter, Bronis R. de Supinski
ECOOP
1998
Springer
15 years 8 months ago
Design and Partial Evaluation of Meta-Objects for a Concurrent Reflective Language
Customizable meta-objects are a powerful abstraction for extending language features and implementation mechanisms, but interpretive execution suffers from severe performance penal...
Hidehiko Masuhara, Akinori Yonezawa