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IPPS
2002
IEEE
14 years 27 days ago
Aligning Two Fragmented Sequences
Upon completion of the human and mouse genome sequences, world-wide sequencing capacity will turn to other complex organisms. Current strategies call for many of these genomes to ...
Vamsi Veeramachaneni, Piotr Berman, Webb Miller
TIP
2008
175views more  TIP 2008»
13 years 7 months ago
Algorithmic and Architectural Optimizations for Computationally Efficient Particle Filtering
Abstract--In this paper, we analyze the computational challenges in implementing particle filtering, especially to video sequences. Particle filtering is a technique used for filte...
Aswin C. Sankaranarayanan, Ankur Srivastava, Rama ...
IPPS
2007
IEEE
14 years 2 months ago
Reconfigurable Architecture for Biological Sequence Comparison in Reduced Memory Space
DNA sequence alignment is a very important problem in bioinformatics. The algorithm proposed by Smith-Waterman (SW) is an exact method that obtains optimal local alignments in qua...
Azzedine Boukerche, Jan Mendonca Correa, Alba Cris...
BMCBI
2010
198views more  BMCBI 2010»
13 years 8 months ago
ClustalXeed: a GUI-based grid computation version for high performance and terabyte size multiple sequence alignment
Background: There is an increasing demand to assemble and align large-scale biological sequence data sets. The commonly used multiple sequence alignment programs are still limited...
Taeho Kim, Hyun Joo
CASES
2006
ACM
13 years 11 months ago
Reaching fast code faster: using modeling for efficient software thread integration on a VLIW DSP
When integrating software threads together to boost performance on a processor with instruction-level parallel processing support, it is rarely clear which code regions should be ...
Won So, Alexander G. Dean