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» Dynamic programming alignment accuracy
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APPT
2007
Springer
15 years 4 months ago
A Parallel BSP Algorithm for Irregular Dynamic Programming
Dynamic programming is a widely applied algorithm design technique in many areas such as computational biology and scientific computing. Typical applications using this technique a...
Malcolm Yoke-Hean Low, Weiguo Liu, Bertil Schmidt
BMCBI
2007
136views more  BMCBI 2007»
15 years 2 months ago
Comparison of protein structures by growing neighborhood alignments
Background: Design of protein structure comparison algorithm is an important research issue, having far reaching implications. In this article, we describe a protein structure com...
Sourangshu Bhattacharya, Chiranjib Bhattacharyya, ...
90
Voted
CSB
2004
IEEE
123views Bioinformatics» more  CSB 2004»
15 years 5 months ago
A New Hardware Architecture for Genomic and Proteomic Sequence Alignment
We describe a novel hardware architecture for genomic and proteomic sequence alignment which achieves a speed-up of two to three orders of magnitude over Smith-Waterman dynamic pr...
Greg Knowles, Paul Gardner-Stephen
94
Voted
CC
2007
Springer
157views System Software» more  CC 2007»
15 years 8 months ago
New Algorithms for SIMD Alignment
Optimizing programs for modern multiprocessor or vector platforms is a major important challenge for compilers today. In this work, we focus on one challenging aspect: the SIMD ALI...
Liza Fireman, Erez Petrank, Ayal Zaks
QRE
2010
129views more  QRE 2010»
15 years 17 days ago
Improving quality of prediction in highly dynamic environments using approximate dynamic programming
In many applications, decision making under uncertainty often involves two steps- prediction of a certain quality parameter or indicator of the system under study and the subseque...
Rajesh Ganesan, Poornima Balakrishna, Lance Sherry