high performance computing on graphics processing units: hgpu.org

hgpu.org » Computational biology

Parallel Tree Traversal for Nearest Neighbor Query on the GPU

Moohyeon Nam, Jinwoong Kim, Beomseok Nam

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Tags: Algorithms, Biology, Computational biology, Computer science, CUDA, Information Retrieval, Nearest neighbour, nVidia, Tesla K40

September 5, 2016 by hgpu

PROJECTION Algorithm for Motif Finding on GPUs

Jhoirene B. Clemente, Francis George C. Cabarle, Henry N. Adorna

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Tags: Algorithms, Biology, Computational biology, CUDA, nVidia

May 26, 2016 by hgpu

On Longest Repeat Queries Using GPU

Yun Tian, Bojian Xu

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Tags: Biology, Computational biology, Computer science, CUDA, nVidia, nVidia GeForce GTX 660 Ti

January 28, 2015 by hgpu

Hybrid CPU-GPU Pipeline Framework

Fahad Khalid, Frank Feinbube, Andreas Polze

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Tags: Biology, Computational biology, CUDA, Heterogeneous systems, nVidia, nVidia GeForce GTX 680

November 18, 2014 by hgpu

High-accuracy Optimization by Parallel Iterative Discrete Approximation and Multi-GPU Computing

Di Zhao

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Tags: Biology, Computational biology, Computational finance, CUDA, Finance, nVidia, nVidia GeForce GTX 660, Thesis

November 13, 2014 by hgpu

Finding Longest Common Subsequences by GPU-Based Parallel Ant Colony Optimization

David Markvica

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Tags: Algorithms, Biology, Computational biology, Computer science, Heterogeneous systems, Metaheuristics, nVidia, nVidia GeForce GTX 560 Ti, OpenCL, Optimization, Pattern recognition, Thesis

October 27, 2014 by hgpu

On the Efficiency of CPU and Hybrid CPU-GPU Systems in Computational Biology Tasks

Nikolay Pydiura, Pavel Karpov, Yaroslav Blume

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Tags: AMD Radeon R9 280, ATI, Biology, Computational biology, CUDA, Molecular dynamics, nVidia, nVidia GeForce GTX 480, OpenCL

October 25, 2014 by hgpu

Massive exploration of perturbed conditions of the blood coagulation cascade through GPU parallelization

Paolo Cazzaniga, Marco S. Nobile, Daniela Besozzi, Matteo Bellini, Giancarlo Mauri

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Tags: Bioinformatics, Biology, Computational biology, CUDA, Differential equations, nVidia, ODEs, Ordinary differential equations, Tesla K20

May 30, 2014 by hgpu

Communication Optimization for Multi GPU Implementation of Smith-Waterman Algorithm

Sampath Kumar, P. K. Baruah

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Tags: Algorithms, Biology, Computational biology, CUDA, Databases, nVidia, Sequence matching, Smith-Waterman algorithm, Tesla M2050

November 2, 2013 by hgpu

A Distributed CPU-GPU Framework for Pairwise Alignments on Large-Scale Sequence Datasets

Da Li, Kittisak Sajjapongse, Huan Truong, Gavin Conant, Michela Becchi

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Tags: Bioinformatics, Biology, Computational biology, CUDA, GPU cluster, Heterogeneous systems, MPI, nVidia, nVidia Quadro FX 2000, Sequence alignment, Tesla K20

May 11, 2013 by hgpu

Streaming Data from HDD to GPUs for Sustained Peak Performance

Lucas Beyer, Paolo Bientinesi

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Tags: Biology, Computational biology, CUDA, nVidia, nVidia Quadro FX 6000, Tesla S2050

February 20, 2013 by hgpu

High performance bioinformatics and computational biology on general-purpose graphics processing units

Cheng Ling

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Tags: Bioinformatics, Biology, Computational biology, CUDA, FPGA, nVidia, nVidia GeForce 8800 GTX, nVidia GeForce GTX 460, Sequence alignment, Thesis

January 3, 2013 by hgpu

Page 1 of 412 3 4 »

OCLADock - OpenCL Accelerated Molecular Docking

A Case Study in Using OpenCL on FPGAs: Creating an Open-Source Accelerator of the AutoDock Molecular Docking Software

sentiment-discovery: Unsupervised Language Modeling at scale for robust sentiment classification

Large Scale Language Modeling: Converging on 40GB of Text in Four Hours

Parallax: A Tool for Automatic Parallelization of Deep Learning Training in Distributed Multi-GPU Environments

Parallax: Automatic Data-Parallel Training of Deep Neural Networks

OpenCLIPER: an OpenCL-based C++ Framework for Overhead-Reduced Medical Image processing and Reconstruction on heterogeneous Devices

OpenCLIPER: an OpenCL-based C++ Framework for Overhead-Reduced Medical Image Processing and Reconstruction on Heterogeneous Devices

Spatial: Specify Parameterized Accelerators Through Inordinately Abstract Language

Spatial: A Language and Compiler for Application Accelerators

cuPentBatch: A batched pentadiagonal solver for NVIDIA GPUs

cuPentBatch – A batched pentadiagonal solver for NVIDIA GPUs

LeFlow: Enabling Flexible FPGA High-Level Synthesis of Tensorflow Deep Neural Networks

CloudCL: Single-Paradigm Distributed Heterogeneous Computing for Cloud Infrastructures

Calamari: OCR Engine based on OCRopy and Kraken

Calamari – A High-Performance Tensorflow-based Deep Learning Package for Optical Character Recognition

FluidFFT: efficient and easy Fast Fourier Transform for Python

FluidFFT: common API (C++ and Python) for Fast Fourier Transform HPC libraries

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Academic Exchange Center in Ocean University of China, Qingdao, China

The 4th International Conference on Communication and Information Processing (ICCIP), 2018

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Hida Takayama, Japan

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Nagoya University, Japan

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high performance computing on graphics processing units: hgpu.org

Parallel Tree Traversal for Nearest Neighbor Query on the GPU

PROJECTION Algorithm for Motif Finding on GPUs

On Longest Repeat Queries Using GPU

Hybrid CPU-GPU Pipeline Framework

High-accuracy Optimization by Parallel Iterative Discrete Approximation and Multi-GPU Computing

Finding Longest Common Subsequences by GPU-Based Parallel Ant Colony Optimization

On the Efficiency of CPU and Hybrid CPU-GPU Systems in Computational Biology Tasks

Massive exploration of perturbed conditions of the blood coagulation cascade through GPU parallelization

Communication Optimization for Multi GPU Implementation of Smith-Waterman Algorithm

A Distributed CPU-GPU Framework for Pairwise Alignments on Large-Scale Sequence Datasets

Streaming Data from HDD to GPUs for Sustained Peak Performance

High performance bioinformatics and computational biology on general-purpose graphics processing units

Recent source codes

OCLADock - OpenCL Accelerated Molecular Docking

sentiment-discovery: Unsupervised Language Modeling at scale for robust sentiment classification

Parallax: A Tool for Automatic Parallelization of Deep Learning Training in Distributed Multi-GPU Environments

OpenCLIPER: an OpenCL-based C++ Framework for Overhead-Reduced Medical Image processing and Reconstruction on heterogeneous Devices

Spatial: Specify Parameterized Accelerators Through Inordinately Abstract Language

cuPentBatch: A batched pentadiagonal solver for NVIDIA GPUs

LeFlow: Enabling Flexible FPGA High-Level Synthesis of Tensorflow Deep Neural Networks

CloudCL: Single-Paradigm Distributed Heterogeneous Computing for Cloud Infrastructures

Calamari: OCR Engine based on OCRopy and Kraken

FluidFFT: efficient and easy Fast Fourier Transform for Python

Most viewed papers (last 30 days)

Featured events

The 3rd International Conference on Computer Systems and Communication Technology (ICCSCT), 2018

The 4th International Conference on Communication and Information Processing (ICCIP), 2018

The Third International Workshop on GPU Computing and AI (GCA), 2018

The 5th International Conference on Power and Energy Systems Engineering (CPESE), 2018

The 10th International Conference on Information Management and Engineering (ICIME), 2018