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A biomolecular electrostatics solver using Python, GPUs and boundary elements that can handle solvent-filled cavities and Stern layers

Christopher D. Cooper, Jaydeep P. Bardhan, L. A. Barba

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Tags: Biomolecules, Boltzmann equation, Computational Physics, CUDA, Electrostatics, Intel Phi, nVidia, Package, Physics, Poisson Boltzmann, Python, Tesla C2075

September 17, 2013 by hgpu

Accelerating moderately stiff chemical kinetics in reactive-flow simulations using GPUs

Kyle E Niemeyer, Chih-Jen Sung

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Tags: Algorithms, Computational Physics, CUDA, nVidia, Physics, Tesla C2075

September 13, 2013 by hgpu

Fast computation of computer-generated hologram using Xeon Phi coprocessor

Koki Murano, Tomoyoshi Shimobaba, Atsushi Sugiyama, Naoki Takada, Takashi Kakue, Minoru Oikawa, Tomoyoshi Ito

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Tags: Algorithms, Computational Physics, Computer holography, CUDA, Intel Phi, nVidia, Performance, Physics, Tesla K20

September 13, 2013 by hgpu

Coherent transport by adiabatic passage on atom chips

T. Morgan, L. J. O'Riordan, N. Crowley, B. O'Sullivan, Th. Busch

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Tags: CUDA, nVidia, nVidia GeForce GTX 580, Physics, Quantum Physics

September 11, 2013 by hgpu

Implementation of PDE models of cardiac dynamics on GPUs using OpenCL

Christopher D. Marcotte, Roman O. Grigoriev

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Tags: Chaotic Dynamics, Computational Physics, Nonlinear Sciences, nVidia, nVidia GeForce GTX 680, OpenCL, Partial differential equations, PDEs, Physics

September 9, 2013 by hgpu

Percolation study of samples on 2D lattices using GPUs

D.A. Matoz-Fernandez, P.M. Pasinetti, A.J. Ramirez-Pastor

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Tags: CUDA, Materials Science, Mathematics, nVidia, nVidia GeForce GTX 480, Physics

September 6, 2013 by hgpu

Swendsen-Wang Multi-Cluster Algorithm for the 2D/3D Ising Model on Xeon Phi and GPU

Florian Wende, Thomas Steinke

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Tags: Algorithms, CUDA, Intel Phi, Ising model, Monte Carlo simulation, MPI, nVidia, Physics, Tesla M2090

August 30, 2013 by hgpu

Numerical simulations of acoustic waves with the graphic acceleration GAMER code

K. Murawski, K. Murawski Jr., H.-Y. Schive

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Tags: CUDA, Numerical simulation, nVidia, nVidia Quadro FX 880 M, Physics

August 29, 2013 by hgpu

On the Use of Graphics Processing Units (GPUs) for Molecular Dynamics Simulation of Spherical Particles

R.C. Hidalgo, T. Kanzaki, F. Alonso-Marroquin, S. Luding

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Tags: CUDA, Molecular dynamics, nVidia, nVidia GeForce GT 430, Physics

August 28, 2013 by hgpu

The development and expansion of HOOMD-blue through six years of GPU proliferation

Joshua A. Anderson, Sharon C. Glotzer

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Tags: Computational Physics, CUDA, Molecular dynamics, nVidia, nVidia GeForce 9800 GTX, nVidia GeForce GTX 580, nVidia GeForce GTX Titan, Package, Physics, Python, Software Engineering, Tesla S1070

August 27, 2013 by hgpu

Lattice Boltzmann Simulations of Multiphase Flows

Jeremy Aaron Kolker Horwitz

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Tags: Algorithms, CUDA, Fluid dynamics, Lattice Boltzmann model, nVidia, Physics, Poisson equation, Tesla C1060, Thesis

August 26, 2013 by hgpu

Tight Binding Molecular Dynamics on CPU and GPU clusters

Dimitar Pashov

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Tags: Algorithms, CUDA, Electrostatics, Fortran, GPU cluster, Linear Algebra, Molecular dynamics, MPI, nVidia, Physics, Tesla K20

August 23, 2013 by hgpu

Over-synchronization in GPU Programs

profile_util: simple C++ library to report memory, timing, thread affinity

Profile Util library: A quick and easy way to get MPI, OpenMP and GPU runtime information

MaC: Mamba CPU performance predictor

MambaCPU: Enhanced Correlation Mining with State Space Models for CPU Performance Prediction

Mixed-precision finite element kernels

Mixed-precision finite element kernels and assembly: Rounding error analysis and hardware acceleration

SHMT: The Simultaneous and Heterogenous Multithreading project

General-Purpose Computing on Tensor Processors

Superpipeline: A Universal Approach for Reducing GPU Memory Usage in Large Models

EnergyUCB-Bandit

Online Energy Optimization in GPUs: A Multi-Armed Bandit Approach

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high performance computing on graphics processing units: hgpu.org

A biomolecular electrostatics solver using Python, GPUs and boundary elements that can handle solvent-filled cavities and Stern layers

Accelerating moderately stiff chemical kinetics in reactive-flow simulations using GPUs

Fast computation of computer-generated hologram using Xeon Phi coprocessor

Coherent transport by adiabatic passage on atom chips

Implementation of PDE models of cardiac dynamics on GPUs using OpenCL

Percolation study of samples on 2D lattices using GPUs

Swendsen-Wang Multi-Cluster Algorithm for the 2D/3D Ising Model on Xeon Phi and GPU

Numerical simulations of acoustic waves with the graphic acceleration GAMER code

On the Use of Graphics Processing Units (GPUs) for Molecular Dynamics Simulation of Spherical Particles

The development and expansion of HOOMD-blue through six years of GPU proliferation

Lattice Boltzmann Simulations of Multiphase Flows

Tight Binding Molecular Dynamics on CPU and GPU clusters

Recent source codes

Kokkidio: Kokkos+Eigen - write fast, readable multi-platform code

LLaMA-Inference-Bench

MATAR

Over-synchronization in GPU Programs

profile_util: simple C++ library to report memory, timing, thread affinity

MaC: Mamba CPU performance predictor

Mixed-precision finite element kernels

SHMT: The Simultaneous and Heterogenous Multithreading project

Superpipeline: A Universal Approach for Reducing GPU Memory Usage in Large Models

EnergyUCB-Bandit

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