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Accelerating molecular docking and binding site mapping using FPGAs and GPUs

Bharat Sukhwani

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Tags: Algorithms, Biology, Biomechanics, CUDA, FPGA, Molecular modeling, nVidia, Tesla C1060, Thesis

October 22, 2011 by hgpu

Hardware Transactional Memory for GPU Architectures

Wilson W. L. Fung, Inderpreet Singh, Andrew Brownsword, Tor M. Aamodt

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Tags: Bloom filter, Computer science, CUDA, Memory, nVidia, nVidia Quadro FX 5800, OpenCL, Performance, Programming techniques

October 22, 2011 by hgpu

Low-Impact Profiling of Streaming, Heterogeneous Applications

Joseph Marion Lancaster

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Tags: Algorithms, Computer science, Heterogeneous systems, Optimization, Performance, Thesis

October 22, 2011 by hgpu

Parallel Compression Checkpointing for Socket-Level Heterogeneous Systems

Yongpeng Liu, Hong Zhu, Yongyan Liu, Feng Wang, Baohua Fan

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Tags: Algorithms, ATI, ATI Radeon HD 4870, Compression, Computer science, Heterogeneous systems, OpenCL

October 22, 2011 by hgpu

Parallelization of the distinct lattice spring model

Gao-Feng Zhao, Jiannong Fang, Liang Sun, Jian Zhao

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Tags: Algorithms, Earth and Space Sciences, Geoscience, MPI, OpenMP, PC cluster

October 22, 2011 by hgpu

Mapping Iterative Medical Imaging Algorithm on Cell Accelerator

Meilian Xu, Parimala Thulasiraman

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Tags: Algorithms, Cell processor, Heterogeneous systems, Image processing, Image recognition, Medicine, Optimization, Tomography

October 22, 2011 by hgpu

Concurrent Algorithms and Data Structures for Many-Core Processors

Daniel Cederman

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Tags: Algorithms, Computer science, nVidia, nVidia GeForce 8600 GTS, nVidia GeForce 8800 GTX, Performance, Sorting, Thesis

October 21, 2011 by hgpu

Solving Linear Recurrences on Hybrid GPU Accelerated Manycore Systems

Przemyslaw Stpiczynski

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Tags: Algorithms, BLAS, Computer science, CUDA, Hybrid computing, Linear Algebra, nVidia, Tesla C2050

October 21, 2011 by hgpu

Analysis and Implementation of eSTREAM and SHA-3 Cryptographic Algorithms

Deian Stefan

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Tags: Algorithms, Benchmarking, Computer science, CUDA, nVidia, nVidia GeForce GTX 295, Optimization, Security, Stream Ciphers, Thesis

October 21, 2011 by hgpu

On the Usage of GPUs for Efficient Motion Estimation in Medical Image Sequences

Jeyarajan Thiyagalingam, Daniel Goodman, Julia A. Schnabel, Anne Trefethen, Vicente Grau

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Tags: Algorithms, CUDA, Databases, Image processing, Medicine, nVidia, nVidia GeForce GTX 480, Tesla C2070

October 21, 2011 by hgpu

Computational Fluid Dynamics Using Graphics Processing Units: Challenges and Opportunities

S. Pratap Vanka, Aaron F. Shinn, Kirti C. Sahu

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Tags: Algorithms, CUDA, Fluid dynamics, nVidia, Review, Tesla C1060

October 21, 2011 by hgpu

DOPA: GPU-based protein alignment using database and memory access optimizations

Laiq Hasan, Marijn Kentie, Zaid Al-Ars

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Source codes

Tags: Algorithms, Bioinformatics, Biology, Computational Complexity, CUDA, Databases, nVidia, nVidia GeForce GTX 275, Optimization, Package, Sequence alignment, Smith-Waterman algorithm

October 21, 2011 by hgpu

PROM: an open-source software framework to enhance the robustness and performance of predictive models against such changes during deployment

Enhancing Deployment-Time Predictive Model Robustness for Code Analysis and Optimization

DeepSpeed: a deep learning optimization library that makes distributed training and inference easy, efficient, and effective

Scalable Access-Pattern Aware I/O Acceleration and Multi-Tiered Data Management for HPC and AI Workloads

Reproducible Study and Performance Analysis of GPU Programming Paradigms: OpenACC vs. CUDA in Key Linear Algebra Computations

SW#SYCL

Analyzing the Performance Portability of SYCL across CPUs, GPUs, and Hybrid Systems with Protein Database Search

tdg-benchs: benchmarks used to test the performance of taskgraph

Leveraging the potential of task-based programming with OpenMP task graphs

See all packages

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high performance computing on graphics processing units: hgpu.org

Applications

Accelerating molecular docking and binding site mapping using FPGAs and GPUs

Hardware Transactional Memory for GPU Architectures

Low-Impact Profiling of Streaming, Heterogeneous Applications

Parallel Compression Checkpointing for Socket-Level Heterogeneous Systems

Parallelization of the distinct lattice spring model

Mapping Iterative Medical Imaging Algorithm on Cell Accelerator

Concurrent Algorithms and Data Structures for Many-Core Processors

Solving Linear Recurrences on Hybrid GPU Accelerated Manycore Systems

Analysis and Implementation of eSTREAM and SHA-3 Cryptographic Algorithms

On the Usage of GPUs for Efficient Motion Estimation in Medical Image Sequences

Computational Fluid Dynamics Using Graphics Processing Units: Challenges and Opportunities

DOPA: GPU-based protein alignment using database and memory access optimizations

Recent source codes

PROM: an open-source software framework to enhance the robustness and performance of predictive models against such changes during deployment

DeepSpeed: a deep learning optimization library that makes distributed training and inference easy, efficient, and effective

HPX: a C++ Standard Library for Concurrency and Parallelism

TorchQC: Quantum Dynamics and Machine Learning

Matrix multiplication using Tensor Cores in CUDA

CPP Joules: Energy Measurement tool for CPP/CUDA programs

HPC-Coder-v2

Reproducible Study and Performance Analysis of GPU Programming Paradigms: OpenACC vs. CUDA in Key Linear Algebra Computations

SW#SYCL

tdg-benchs: benchmarks used to test the performance of taskgraph

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