high performance computing on graphics processing units: hgpu.org

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Interactive GPU active contours for segmenting inhomogeneous objects

Chris G. Willcocks, Philip T. G. Jackson, Carl J. Nelson, Amar V. Nasrulloh, Boguslaw Obara

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Tags: Biology, Image processing, Medicine, nVidia, nVidia GeForce GTX Titan X, OpenCL, Package

February 9, 2018 by hgpu

Fast and Flexible GPU Accelerated Binding Free Energy Calculations within the AMBER Molecular Dynamics Package

Daniel J. Mermelstein, Charles Lin, Gard Nelson, Rachael Kretsch, J. Andrew McCammon, Ross C. Walker

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Tags: Algorithms, Bioinformatics, Biology, CUDA, Molecular dynamics, nVidia, nVidia GeForce GTX 1080 Ti, nVidia GeForce GTX Titan X

January 20, 2018 by hgpu

pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment

Sven Warris, N. Roshan N. Timal, Marcel Kempenaar, Arne M. Poortinga, Henri van de Geest, Ana L. Varbanescu, Jan-Peter Nap

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Tags: Bioinformatics, Biology, CUDA, nVidia, nVidia GeForce GTX 1070, OpenCL, Package, Python, Sequence alignment, Smith-Waterman algorithm

January 13, 2018 by hgpu

Molecular dynamics recipes for genome research

Tommaso Biagini, Giovanni Chillemi, Gianluigi Mazzoccoli, Alessandro Grottesi, Caterina Fusilli, Daniele Capocefalo, Stefano Castellana, Angelo Luigi Vescovi, Tommaso Mazza

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Tags: Benchmarking, Bioinformatics, Biology, Chemistry, CUDA, Genomics, Molecular dynamics, nVidia, OpenCL, Physics, Tesla C2070

December 19, 2017 by hgpu

HCudaBLAST: an implementation of BLAST on Hadoop and Cuda

Nilay Khare, Alind Khare and Farhan Khan

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Tags: Algorithms, Bioinformatics, Biology, BLAST, CUDA, Hadoop, nVidia, nVidia Quadro 2000, nVidia Quadro 600, Tesla C2075

December 3, 2017 by hgpu

A Hybrid-parallel Architecture for Applications in Bioinformatics

Jan Christian Kassens

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Tags: Algorithms, Bioinformatics, Biology, Computer science, CUDA, FPGA, nVidia, nVidia GeForce GTX 780 Ti, Thesis

December 3, 2017 by hgpu

High Performance Streaming Smith-Waterman Implementation with Implicit Synchronization on Intel FPGA using OpenCL

Ernst Joachim Houtgast, Vlad-Mihai Sima, Zaid Al-Ars

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Tags: Algorithms, Bioinformatics, Biology, FPGA, OpenCL, Smith-Waterman algorithm

November 26, 2017 by hgpu

Accelerating Genomics Research with OpenCL and FPGAs

Chris Rauer, George S. Powley, Mir Ahsan, Nicholas Finamore

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Tags: Algorithms, Biology, Computer science, FPGA, Genomics, OpenCL

October 15, 2017 by hgpu

Dynamic Parallelism in GPU Optimized Barnes Hut Trees for Molecular Dynamics Simulations

Melisa Carranza Zuniga

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Tags: Algorithms, Biology, Biomolecules, Biophysics, Chemistry, CUDA, Molecular dynamics, nVidia, nVidia GeForce GTX 480, Physics, Thesis

August 26, 2017 by hgpu

eccCL: parallelized GPU implementation of Ensemble Classifier Chains

Mona Riemenschneider, Alexander Herbst, Ari Rasch, Sergei Gorlatch, Dominik Heider

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Tags: Biology, Computer science, Java, Next-Generation sequencing, nVidia, OpenCL, Package, R, Tesla K20

August 26, 2017 by hgpu

Simulating the Cardinal Movements of Childbirth Using Finite Element Analysis on the Graphics Processing Unit

Zelimkhan Gerikhanov

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Tags: AMD Radeon HD 8970 M, ATI, Biology, Biomechanics, FEM, Finite element method, Medicine, MRI, OpenCL, Thesis

August 17, 2017 by hgpu

Gpufit: An open-source toolkit for GPU-accelerated curve fitting

Adrian Przybylski, Bjorn Thiel, Jan Keller-Findeisen, Bernd Stock, Mark Bates

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Tags: Biology, Computer science, CUDA, Microscopy, nVidia, nVidia GeForce GTX 1080, Package, Python

August 17, 2017 by hgpu

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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

XGBoost: Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library

XGBoost: Scalable GPU Accelerated Learning

DeepSmith: Compiler Fuzzing through Deep Learning

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AVX-512 extension to OpenQCD 1.6

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Dank Learning: Generating Memes Using Deep Neural Networks

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high performance computing on graphics processing units: hgpu.org

Interactive GPU active contours for segmenting inhomogeneous objects

Fast and Flexible GPU Accelerated Binding Free Energy Calculations within the AMBER Molecular Dynamics Package

pyPaSWAS: Python-based multi-core CPU and GPU sequence alignment

Molecular dynamics recipes for genome research

HCudaBLAST: an implementation of BLAST on Hadoop and Cuda

A Hybrid-parallel Architecture for Applications in Bioinformatics

High Performance Streaming Smith-Waterman Implementation with Implicit Synchronization on Intel FPGA using OpenCL

Accelerating Genomics Research with OpenCL and FPGAs

Dynamic Parallelism in GPU Optimized Barnes Hut Trees for Molecular Dynamics Simulations

eccCL: parallelized GPU implementation of Ensemble Classifier Chains

Simulating the Cardinal Movements of Childbirth Using Finite Element Analysis on the Graphics Processing Unit

Gpufit: An open-source toolkit for GPU-accelerated curve fitting

Recent source codes

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

XGBoost: Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library

DeepSmith: Compiler Fuzzing through Deep Learning

Prototype of SYCL Parallel STL with Ranges

Go CNN bot

DeepSmith: Compiler Fuzzing through Deep Learning

OpenQCD-AVX512: An AVX512 extention to the OpenQCD lattice simulation code

MemeProject

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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