high performance computing on graphics processing units: hgpu.org

hgpu.org » Applications

GPU accelerated Monte Carlo simulation of the 2D and 3D Ising model

Tobias Preis, Peter Virnau, Wolfgang Paul, Johannes J. Schneider

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Tags: CUDA, Finite size scaling, Ising model, Monte Carlo simulation, nVidia, nVidia GeForce GTX 280, Package, Phase transition, Physics

November 8, 2010 by hgpu

Solving lattice QCD systems of equations using mixed precision solvers on GPUs

M. A. Clark, R. Babich, K. Barros, R. C. Brower, C. Rebbi

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Tags: CUDA, High Energy Physics - Lattice, Monte Carlo simulation, nVidia, nVidia GeForce GTX 280, Package, Physics, QCD

November 8, 2010 by hgpu

Accelerating glassy dynamics using graphics processing units

Peter H. Colberg, Felix Hofling

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Tags: Computational Physics, CUDA, nVidia, nVidia GeForce GTX 280, Package, Physics, Soft Condensed Matter

November 8, 2010 by hgpu

Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS

Casey S. Greene, Nicholas A. Sinnott-Armstrong, Daniel S. Himmelstein, Paul J. Park, Jason H. Moore, Brent T. Harris

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Tags: Bioinformatics, Biology, CUDA, Genetics, nVidia, nVidia GeForce GTX 295, Package

November 7, 2010 by hgpu

Parallel hyperbolic PDE simulation on clusters: Cell versus GPU

Scott Rostrup, Hans De Sterck

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Tags: Cell processor, CUDA, Hyperbolic PDEs, Hyperbolic system, Mathematics, nVidia, Package, Tesla C2050, Tesla T10

November 7, 2010 by hgpu

Biomolecular electrostatics simulation with a parallel FMM-based BEM, using up to 512 GPUs

Rio Yokota, Jaydeep P. Bardhan, Matthew G. Knepley, L. A. Barba, Tsuyoshi Hamada

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Tags: Chemistry, CUDA, GPU cluster, Molecular modeling, nVidia, nVidia GeForce GTX 295, Package

November 7, 2010 by hgpu

MDLab: A molecular dynamics simulation prototyping environment

Trevor Cickovski, Santanu Chatterjee, Jacob Wenger, Christopher R. Sweet, Jesus A. Izaguirre

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Tags: Chemistry, Computational chemistry, CUDA, Molecular dynamics, nVidia, Package, Python

November 6, 2010 by hgpu

CUDASW++ 2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions

Yongchao Liu, Bertil Schmidt, Douglas Maskell

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Tags: Bioinformatics, Biology, Computational biology, CUDA, nVidia, nVidia GeForce GTX 280, nVidia GeForce GTX 295, Package, Smith-Waterman algorithm

November 6, 2010 by hgpu

Automatic fitting of spiking neuron models to electrophysiological recordings

Cyrille Rossant, Dan F. Goodman, Jonathan Platkiewicz, Romain Brette

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Tags: Adaptive threshold, Biology, CUDA, Distributed computing, Neuroscience, nVidia, nVidia GeForce GTX 295, Optimization, Package

November 6, 2010 by hgpu

StoreGPU: exploiting graphics processing units to accelerate distributed storage systems

Samer Al-Kiswany, Abdullah Gharaibeh, Elizeu Santos-Neto, George Yuan, Matei Ripeanu

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Tags: Computer science, CUDA, Hashing, nVidia, nVidia GeForce 8600 GTS, nVidia GeForce 9800 GTX, Package, Storage system

November 6, 2010 by hgpu

Accelerating Dust Temperature Calculations with Graphics Processing Units

Patrik Jonsson, Joel Primack

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Tags: Astrophysics, CUDA, Instrumentation and Methods for Astrophysics, nVidia, Package, Physics, Tesla C1060

November 6, 2010 by hgpu

SAPPORO: A way to turn your graphics cards into a GRAPE-6

Evghenii Gaburov, Stefan Harfst, Simon P. Zwart

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Tags: Astrophysics, CUDA, Instrumentation and Methods for Astrophysics, nVidia, nVidia GeForce 9800 GX2, Package, Physics

November 6, 2010 by hgpu

hpcbench: A set of benchmarking utilities for biomolecular simulation tools

Engineering Supercomputing Platforms for Biomolecular Applications

HPCTransCompile: An AI Compiler Generated Dataset for High-Performance CUDA Transpilation and LLM Preliminary Exploration

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high performance computing on graphics processing units: hgpu.org

Applications

GPU accelerated Monte Carlo simulation of the 2D and 3D Ising model

Solving lattice QCD systems of equations using mixed precision solvers on GPUs

Accelerating glassy dynamics using graphics processing units

Multifactor dimensionality reduction for graphics processing units enables genome-wide testing of epistasis in sporadic ALS

Parallel hyperbolic PDE simulation on clusters: Cell versus GPU

Biomolecular electrostatics simulation with a parallel FMM-based BEM, using up to 512 GPUs

MDLab: A molecular dynamics simulation prototyping environment

CUDASW++ 2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions

Automatic fitting of spiking neuron models to electrophysiological recordings

StoreGPU: exploiting graphics processing units to accelerate distributed storage systems

Accelerating Dust Temperature Calculations with Graphics Processing Units

SAPPORO: A way to turn your graphics cards into a GRAPE-6

Recent source codes

hpcbench: A set of benchmarking utilities for biomolecular simulation tools

HPCTransCompile: An AI Compiler Generated Dataset for High-Performance CUDA Transpilation and LLM Preliminary Exploration

chemtrain: Training Molecular Dynamics Potentials in JAX

microSYCL: SYCL micro-benchmarks repository

XaaS containers

CASS: Cuda-Amd aSSembly

Cluser of smartphones for edge computing application using TensorFlow

SYCL Container

CFAL-bench

Efficient Graph Embedding at Scale: Optimizing CPU-GPU-SSD Integration

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