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This paper considers a method for accelerating finite-element simulations of electromagnetic problems on a workstation using graphics processing units (GPUs). The focus is on finite-element formulations using higher order elements and tetrahedral meshes that lead to sparse matrices too large to be dealt with on a typical workstation using direct methods. We discuss the problem of rapid matrix generation...
String matching problems such as sequence alignment is one of the fundamental problems in many computer since fields such as natural language processing (NLP) and bioinformatics. Many algorithms have been proposed in the literature to address this problem. Some of these algorithms compute the edit distance between the two strings to perform the matching. However, these algorithms usually require long...
Commodity graphic processing units (GPUs) have rapidly evolved to become high performance accelerators for data-parallel computing through a large array of processing cores and the CUDA programming model with a C-like interface. However, optimizing an application for maximum performance based on the GPU architecture is not a trivial task for the tremendous change from conventional multi-core to the...
Now high-throughput sequencing technologies can yield a huge volume of sequence data with affordable price, the explosion rate of sequence data is outpacing the performance improvement of CPU, which means trivial sequence analysis task may challenge existing serial programs running purely on CPU. This paper depicts a highly parallel sequence translation program running on a commodity multiprocessor...
A CUDA implementation of the existing software FIRST (Fast Iterative Reconstruction Software for (PET) Tomography) is presented. This implementation uses consumer graphics processing units (GPUs) to accelerate the compute-intensive parts of the reconstruction: forward and backward projection. FIRST was originally developed in FORTRAN, and it has been migrated to C language to be used with NVIDIA C...
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