high performance computing on graphics processing units: hgpu.org

hgpu.org » Biology

Accelerating Genomics Research with OpenCL and FPGAs

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

View

Download (PDF)

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

View

Download (PDF)

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

View

Download (PDF)

Source codes

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

View

Download (PDF)

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

View

Download (PDF)

Source codes

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

August 17, 2017 by hgpu

Smith-Waterman Acceleration in Multi-GPUs: A Performance per Watt Analysis

Jesus Perez Serrano, Edans Flavius De Oliveira Sandes, Alba Cristina Magalhaes Alves de Melo, Manuel Ujaldon

View

Download (PDF)

Tags: Bioinformatics, Biology, CUDA, Energy-efficient computing, nVidia, nVidia GeForce GTX 980, Performance, Smith-Waterman algorithm

June 10, 2017 by hgpu

DeepMetabolism: A Deep Learning System to Predict Phenotype from Genome Sequencing

Weihua Guo, You Xu, Xueyang Feng

View

Download (PDF)

Source codes

Tags: Biology, Computer science, Deep learning, Medicine, nVidia, nVidia GeForce GTX 1080, Package, Python, TensorFlow

May 11, 2017 by hgpu

Exploration of cyber-physical systems for GPGPU computer vision-based detection of biological viruses

Pascal Libuschewski

View

Download (PDF)

Tags: Biology, Computer vision, Design space exploration, Microscopy, nVidia, nVidia GeForce GTX 480, nVidia GeForce GTX 560 Ti, nVidia Quadro NVS 3100 M, OpenCL, Thesis, Visualization

April 20, 2017 by hgpu

A Domain Specific Language for Performance Portable Molecular Dynamics Algorithms

William R. Saunders, James Grant, Eike H. Muller

View

Download (PDF)

Source codes

Tags: Algorithms, Biology, Chemistry, Code generation, Computer science, CUDA, Differential equations, DSL, Molecular dynamics, nVidia, Package, Partial differential equations, PDEs, Physics, Python, Tesla K20

April 15, 2017 by hgpu

Exploiting Multi-level Parallelism on a Many-core System for the Application of Hyperheuristics to a Molecular Docking Problem

Jose M. Cecilia, Jose-Matias, Cutillas-Lozano, Domingo Gimenez, Baldomero Imbernon

View

Download (PDF)

Tags: Bioinformatics, Biology, Chemistry, Intel Xeon Phi, Metaheuristics, molecular docking

March 20, 2017 by hgpu

First Experiences Optimizing Smith-Waterman on Intel’s Knights Landing Processor

Enzo Rucci, Carlos Garcia, Guillermo Botella, Armando De Giusti, Marcelo Naiouf, Manuel Prieto-Matias

View

Download (PDF)

Tags: Bioinformatics, Biology, Computer science, Intel Xeon Phi, Sequence alignment, Smith-Waterman algorithm

February 26, 2017 by hgpu

Analysis and implementation of a BLAST-Like algorithm for MIC architectures

Felipe Sulser Larraz

View

Download (PDF)

Tags: Benchmarking, Bioinformatics, Biology, Computer science, Databases, Filtering, Intel Xeon Phi, Sequence alignment, Smith-Waterman algorithm, Thesis

February 2, 2017 by hgpu

Page 1 of 3812 3 4 5...10 20 30...»Last »

Bridge++: a code set for numerical simulations of lattice gauge theory including QCD

Wilson and Domainwall Kernels on Oakforest-PACS

Synkhronos: a Multi-GPU Theano Extension for Data Parallelism

SoAx: A generic C++ Structure of Arrays for handling Particles in HPC Codes

GPGPU-Treewidth: A GPU implementation for computing the treewidth of a graph

Computing Treewidth on the GPU

containers-benchs: Just a bunch of method and scripts to test performances with containers

Performance Evaluation of Container-based Virtualization for High Performance Computing Environments

OpenCL Actors - Adding Data Parallelism to Actor-based Programming with CAF

OpenCL Actors – Adding Data Parallelism to Actor-based Programming with CAF

GALARIO: a GPU Accelerated Library for Analysing Radio Interferometer Observations

* * *

2018

January

Manchester, United Kingdom

The Sixth International Workshop on Power-Efficient GPU and Many-core Computing (PEGPUM), 2018

2018

May

16-18

Amsterdam, The Netherlands

10th International Conference on Bioinformatics and Biomedical Technology (ICBBT), 2018

2018

April

23-25

Singapore

The International Conference on Machine Vision and Applications (ICMVA), 2018

2018

May

11-14

Shanghai, China

The 10th International Conference on Digital Image Processing (ICDIP), 2018

2018

April

9-11

Florida, USA

2nd International Conference on Information System and Data Mining (ICISDM), 2018

Add event

See all events

high performance computing on graphics processing units: hgpu.org

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

Smith-Waterman Acceleration in Multi-GPUs: A Performance per Watt Analysis

DeepMetabolism: A Deep Learning System to Predict Phenotype from Genome Sequencing

Exploration of cyber-physical systems for GPGPU computer vision-based detection of biological viruses

A Domain Specific Language for Performance Portable Molecular Dynamics Algorithms

Exploiting Multi-level Parallelism on a Many-core System for the Application of Hyperheuristics to a Molecular Docking Problem

First Experiences Optimizing Smith-Waterman on Intel’s Knights Landing Processor

Analysis and implementation of a BLAST-Like algorithm for MIC architectures

Recent source codes

Bridge++: a code set for numerical simulations of lattice gauge theory including QCD

Synkhronos: a Multi-GPU Theano Extension for Data Parallelism

SoAx: A generic C++ Structure of Arrays for handling Particles in HPC Codes

GPGPU-Treewidth: A GPU implementation for computing the treewidth of a graph

containers-benchs: Just a bunch of method and scripts to test performances with containers

OpenCL Actors - Adding Data Parallelism to Actor-based Programming with CAF

GALARIO: a GPU Accelerated Library for Analysing Radio Interferometer Observations

CCSQCDSolverBench: CCS QCD Solver benchmark program (MIC(KNC) version)

TuneBench: Simple tunable OpenCL kernels for many-core accelerators

ZZGemmOoc: GPU GEMM out-of-core solvers

Most viewed papers (last 30 days)

Featured events

The Sixth International Workshop on Power-Efficient GPU and Many-core Computing (PEGPUM), 2018

10th International Conference on Bioinformatics and Biomedical Technology (ICBBT), 2018

The International Conference on Machine Vision and Applications (ICMVA), 2018

The 10th International Conference on Digital Image Processing (ICDIP), 2018

2nd International Conference on Information System and Data Mining (ICISDM), 2018