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Graphics processing units(GPUs) provide a low cost platform for accelerating high performance computations. New programming languages, such as CUDA and OpenCL, make GPU programming attractive to programmers. However, programming GPUs is still a cumbersome task for two reasons, tedious performance optimizations and lack of portability. First, optimizing an algorithm for a specific GPU is a time-consuming...
Due to the exponentially growing bioinformatics databases and rapidly popular of GPU for general purpose computing, it is promising to employ GPU techniques to accelerate the sequence search process. Hmmsearch from HMMER bioinformatics software package is a wildly used software tool for sensitive profile HMM (Hidden Markov Model) searches of biological sequence databases. In this paper, we implement...
GPUs have recently been used to accelerate data-parallel applications for they provide easier programmability and increased generality while maintaining the tremendous memory bandwidth and computational power. Most of those applications use CPU as a controller who decides when GPUs run the computing-intensive tasks. This CPU-control-GPU-compute pattern wastes much of CPU's computational power. In...
Multimedia and some scientific applications have achieved good performance on the stream processor architecture by employing the stream programming model. In order to find out the way to accelerate the symmetric cryptograph on stream processor, we implement and analyze cryptograph algorithms on different stream processors in this paper. Four cipher algorithms including RC5, AES, TWOFISH and 3DES in...
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