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MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA

Yongchao Liu, Bertil Schmidt, Douglas L. Maskell

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Tags: Bioinformatics, Biology, CUDA, nVidia, nVidia GeForce GTX 280, Sequence alignment

November 21, 2010 by hgpu

Performance Analysis of General-Purpose Computation on Commodity Graphics Hardware: A Case Study Using Bioinformatics

Weiguo Liu, Bertil Schmidt, Wolfgang Muller-Wittig

Tags: Biology, Computer science, nVidia, Sequence alignment, Signal processing

November 7, 2010 by hgpu

Streaming Algorithms for Biological Sequence Alignment on GPUs

Weiguo Liu, Bertil Schmidt, Gerrit Voss, Wolfgang M. Wittig

Tags: Biology, Sequence alignment

November 3, 2010 by hgpu

GPU-ClustalW: Using Graphics Hardware to Accelerate Multiple Sequence Alignment

Weiguo Liu, Bertil Schmidt, Gerrit Voss, Wolfgang Müller-Wittig

Tags: Bioinformatics, Biology, Computational biology, Computer science, Sequence alignment

November 1, 2010 by hgpu

High-throughput sequence alignment using Graphics Processing Units

Michael Schatz, Cole Trapnell, Arthur Delcher, Amitabh Varshney

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Tags: Bioinformatics, Biology, Computational biology, CUDA, nVidia, nVidia GeForce 8800 GTX, Package, Sequence alignment

November 1, 2010 by hgpu

Optimizing data intensive GPGPU computations for DNA sequence alignment

Cole Trapnell, Michael C. Schatz

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Tags: Bioinformatics, Biology, Computational biology, CUDA, nVidia, nVidia GeForce 8800 GTX, Package, Sequence alignment, Short read mapping, Suffix trees

October 30, 2010 by hgpu

An efficient implementation of Smith Waterman algorithm on GPU using CUDA, for massively parallel scanning of sequence databases

Lukasz Ligowski, Witold Rudnicki

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Tags: Bioinformatics, Biology, Computational biology, Computer science, CUDA, nVidia, nVidia GeForce 9800 GX2, Sequence alignment, Smith-Waterman algorithm

October 28, 2010 by hgpu

CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment

Svetlin Manavski, Giorgio Valle

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Tags: Bioinformatics, Biology, Computational biology, Computer science, CUDA, nVidia, nVidia GeForce 8800 GTX, Package, Sequence alignment, Smith-Waterman algorithm

October 28, 2010 by hgpu

Sequence alignment with GPU: Performance and design challenges

Gregory M. Striemer, Ali Akoglu

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Tags: Bioinformatics, Biology, Computational biology, Computer science, CUDA, nVidia, Package, Sequence alignment, Smith-Waterman algorithm, Tesla C870

October 27, 2010 by hgpu

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high performance computing on graphics processing units: hgpu.org

MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA

Performance Analysis of General-Purpose Computation on Commodity Graphics Hardware: A Case Study Using Bioinformatics

Streaming Algorithms for Biological Sequence Alignment on GPUs

GPU-ClustalW: Using Graphics Hardware to Accelerate Multiple Sequence Alignment

High-throughput sequence alignment using Graphics Processing Units

Optimizing data intensive GPGPU computations for DNA sequence alignment

An efficient implementation of Smith Waterman algorithm on GPU using CUDA, for massively parallel scanning of sequence databases

CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment

Sequence alignment with GPU: Performance and design challenges

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