high performance computing on graphics processing units: hgpu.org

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Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors

Torbjorn Rognes, Erling Seeberg

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Tags: Algorithms, Bioinformatics, Biology, Sequence alignment, Smith-Waterman algorithm

July 6, 2011 by hgpu

Pseudo-random number generation for Brownian Dynamics and Dissipative Particle Dynamics simulations on GPU devices

Carolyn L. Phillips, Joshua A. Anderson, Sharon C. Glotzer

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Tags: Algorithms, Computer science, Package, Physics, Pseudo-random number generators

July 6, 2011 by hgpu

GPU Accelerated Chemical Similarity Calculation for Compound Library Comparison

Chao Ma, Lirong Wang, Xiang-Qun Xie

Tags: Algorithms, Chemistry, CUDA, Nearest neighbour, nVidia

July 6, 2011 by hgpu

Real-time Motion Estimation for 1080p videos on graphics processing units with shared memory optimization

Shang-Te Yang, Tsung-Kai Lin, Shao-Yi Chien

Tags: Algorithms, Computer science, Computer vision

July 4, 2011 by hgpu

GPU-assisted positive mean value coordinates for mesh deformations

Yaron Lipman, Johannes Kopf, Daniel Cohen-Or, David Levin

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Tags: Algorithms, Computer science, Image generation

July 1, 2011 by hgpu

Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup

Andrew T. Magis, John C. Earls, Youn-Hee H. Ko, James A. Eddy, Nathan D. Price

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Tags: Algorithms, Bioinformatics, Biology, CUDA, nVidia, Package

July 1, 2011 by hgpu

Caustics Mapping: An Image-Space Technique for Real-Time Caustics

Musawir Shah, Jaakko Konttinen, Sumanta Pattanaik

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Tags: Algorithms, Computer science, DirectX, nVidia, nVidia GeForce 7800, Real-time graphics, Rendering

June 29, 2011 by hgpu

A High Performance Massively Parallel Approach for Real Time Deformable Body Physics Simulation

Thiago S.M.C de Farias, Mozart W.S. Almeida, Joao Marcelo X.N. Teixeira, Veronica Teichrieb, Judith Kelner

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Tags: Algorithms, Computer science, CUDA, Games, nVidia, nVidia GeForce 8800 GTX, Physics-based simulation, Visualization

June 27, 2011 by hgpu

Acceleration of the Method of Moments Calculations by Using Graphics Processing Units

Shaoxin Peng, Zaiping Nie

Tags: Algorithms, Electrodynamics

June 26, 2011 by hgpu

Parallel Processing for Normal Mixture Models of Hyperspectral Data Using a Graphics Processor

Yuliya Tarabalka, Trym Vegard Haavardsholm, Ingebjorg Kasen, Torbjorn Skauli

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Tags: Algorithms, CUDA, Image processing, nVidia, nVidia GeForce 8800 Ultra

June 25, 2011 by hgpu

Ringing: Frugal Subdivision of Curves and Surfaces

J. Rossignac, A. Venkatesh

Tags: Algorithms, Computer science, Rendering

June 25, 2011 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

Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors

Pseudo-random number generation for Brownian Dynamics and Dissipative Particle Dynamics simulations on GPU devices

GPU Accelerated Chemical Similarity Calculation for Compound Library Comparison

Real-time Motion Estimation for 1080p videos on graphics processing units with shared memory optimization

GPU-assisted positive mean value coordinates for mesh deformations

Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup

Caustics Mapping: An Image-Space Technique for Real-Time Caustics

A High Performance Massively Parallel Approach for Real Time Deformable Body Physics Simulation

Acceleration of the Method of Moments Calculations by Using Graphics Processing Units

Parallel Processing for Normal Mixture Models of Hyperspectral Data Using a Graphics Processor

Ringing: Frugal Subdivision of Curves and Surfaces

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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