high performance computing on graphics processing units: hgpu.org

Programming

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Evaluating the impact of reordering unstructured meshes on the performance of finite volume GPU solvers

Marc de la Asuncion, Jose M. Mantas, Manuel J. Castro

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Tags: Computer science, CUDA, Finite volume method, nVidia, nVidia GeForce GTX 580, Performance

June 21, 2012 by hgpu

CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform

Yongchao Liu, Bertil Schmidt, Douglas L. Maskell

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Tags: Bioinformatics, Biology, CUDA, nVidia, Package, Tesla C2050

June 21, 2012 by hgpu

FMM-based vortex method for simulation of isotropic turbulence on GPUs, compared with a spectral method

Rio Yokota, L. A. Barba

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Tags: Computational Physics, Computer science, CUDA, Fast multipole method, FFT, Fluid dynamics, N-body simulation, Numerical Analysis, Numerical simulation, nVidia, Package, Spectral methods, Tesla C2070, Tesla M2050

June 21, 2012 by hgpu

High-precision molecular dynamics simulation of UO2-PuO2: Anion self-diffusion in UO2

S.I. Potashnikov, A.S. Boyarchenkov, K.A. Nekrasov, A.Ya. Kupryazhkin

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Tags: Condensed matter, CUDA, DirectCompute, HLSL, Materials Science, Molecular dynamics, nVidia, Package

June 21, 2012 by hgpu

GPU Accelerated Greedy Algorithms for Compressed Sensing

Jeffrey D. Blanchard, Jared Tanner

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Tags: Algorithms, Computer science, CUDA, nVidia, Optimization, Sensing, Tesla C2050

June 20, 2012 by hgpu

Towards a GPU-based Implementation of Interaction Nets

Eugen Jiresch

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Tags: Computer science, CUDA, Graph theory, nVidia, nVidia GeForce GTX 460, Package

June 20, 2012 by hgpu

GPU Computing: Image Convolution

Jan Novak, Anton Kaplanyan, Gabor Liktor, Carsten Dachsbacher

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Tags: Education, Image processing, OpenCL, Package

June 20, 2012 by hgpu

Parallel Implementation of the Wu-Manber Algorithm Using the OpenCL Framework

Themistoklis K. Pyrgiotis, Charalampos S. Kouzinopoulos, Konstantinos G. Margaritis

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Tags: Algorithms, Biology, Computational biology, Databases, nVidia, nVidia GeForce GTX 280, OpenCL, Pattern Search, Sequence matching

June 20, 2012 by hgpu

An Investigation into Concurrent Expectation Propagation

David Hall, Alex Kantchelian

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Tags: Algorithms, ATI, ATI Radeon HD 6490 M, Computer science, Machine learning, OpenCL, Physics

June 20, 2012 by hgpu

Two Algorithms for Sorting On Heterogeneous Clusters

Kyle Spafford, Jeremy Meredith, Jeffrey Vetter, Aparna Chandramowlishwaran, David Noble, Richard Vuduc

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Tags: Algorithms, Computer science, CUDA, Heterogeneous systems, MPI, nVidia, OpenMP, Sorting, Tesla M2070

June 19, 2012 by hgpu

Optimizing dataflow applications on heterogeneous environments

George Teodoro, Timothy D. R. Hartley, Umit V. Catalyurek, Renato Ferreira

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Tags: Computer science, CUDA, Heterogeneous systems, nVidia, nVidia GeForce 8800 GT, nVidia GeForce GTX 260, Tesla C2050

June 19, 2012 by hgpu

Efficient simulations of long wave propagation and runup using a LBM approach on GPGPU hardware

Christian F. Janssen, Stephan T. Grilli, Manfred Krafczyk

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Tags: Algorithms, CUDA, Fluid dynamics, Lattice Boltzmann model, Numerical simulation, nVidia, Tesla C2070, Wave equation

June 19, 2012 by hgpu

bioagent-bench: Benchmark for evaluating LLM agents in bioinformatics

BioAgent Bench: An AI Agent Evaluation Suite for Bioinformatics

Benchmark suite for LLM inference on NVIDIA consumer GPUs

Private LLM Inference on Consumer Blackwell GPUs: A Practical Guide for Cost-Effective Local Deployment in SMEs

Theorizer: from the paper Generating Literature-Driven Scientific Discoveries at Scale

Generating Literature-Driven Scientific Theories at Scale

Nsight Python: a Python kernel profiling interface based on NVIDIA Nsight Tools

Nsight Python: A Python-First Profiling Toolkit for Seamless GPU Kernel Analysis (Tool)

Awesome LLM-Driven Kernel Generation

Towards Automated Kernel Generation in the Era of LLMs

PhysProver: Advancing Automatic Theorem Proving for Physics

ParaCodex: A Profiling-Guided Autonomous Coding Agent for Reliable Parallel Code Generation and Translation

SeedFold: Scaling Biomolecular Structure Prediction

Tilus: A Tile-Level GPU Kernel Programming Language

Tilus: A Tile-Level GPGPU Programming Language for Low-Precision Computation

Memory-Efficient Acceleration of Block Low-Rank Foundation Models on Resource Constrained GPUs

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high performance computing on graphics processing units: hgpu.org

Programming

Evaluating the impact of reordering unstructured meshes on the performance of finite volume GPU solvers

CUSHAW: a CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform

FMM-based vortex method for simulation of isotropic turbulence on GPUs, compared with a spectral method

High-precision molecular dynamics simulation of UO2-PuO2: Anion self-diffusion in UO2

GPU Accelerated Greedy Algorithms for Compressed Sensing

Towards a GPU-based Implementation of Interaction Nets

GPU Computing: Image Convolution

Parallel Implementation of the Wu-Manber Algorithm Using the OpenCL Framework

An Investigation into Concurrent Expectation Propagation

Two Algorithms for Sorting On Heterogeneous Clusters

Optimizing dataflow applications on heterogeneous environments

Efficient simulations of long wave propagation and runup using a LBM approach on GPGPU hardware

Recent source codes

bioagent-bench: Benchmark for evaluating LLM agents in bioinformatics

Benchmark suite for LLM inference on NVIDIA consumer GPUs

Theorizer: from the paper Generating Literature-Driven Scientific Discoveries at Scale

Nsight Python: a Python kernel profiling interface based on NVIDIA Nsight Tools

Awesome LLM-Driven Kernel Generation

PhysProver: Advancing Automatic Theorem Proving for Physics

ParaCodex: A Profiling-Guided Autonomous Coding Agent for Reliable Parallel Code Generation and Translation

SeedFold: Scaling Biomolecular Structure Prediction

Tilus: A Tile-Level GPU Kernel Programming Language

Memory-Efficient Acceleration of Block Low-Rank Foundation Models on Resource Constrained GPUs

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