high performance computing on graphics processing units: hgpu.org

Applications

hgpu.org » Applications » Biology

GeNN: a code generation framework for accelerated brain simulations

Esin Yavuz, James Turner, Thomas Nowotny

View

Download (PDF)

Source codes

Tags: Biology, Code generation, CUDA, Neural networks, Neuroscience, Numerical simulation, nVidia, nVidia Quadro K 2000 M, Package, Tesla C2070, Tesla K40

January 29, 2016 by hgpu

Pairwise Sequence Alignment with Gaps with GPU

Thomas C. Carroll, Jude-Thaddeus Ojiaku, Prudence W.H. Wong

View

Download (PDF)

Tags: Algorithms, Bioinformatics, Biology, CUDA, nVidia, nVidia GeForce GTX 650, OpenCL, Sequence alignment

October 27, 2015 by hgpu

Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain

Lev E. Givon, Aurel A. Lazar

View

Download (PDF)

Source codes

Tags: Biology, Computer science, CUDA, nVidia, OpenMPI, Tesla K20

October 22, 2015 by hgpu

Accelerating Protein Structure Prediction using Particle Swarm Optimization on GPU

Hamed Khakzad, Yasaman Karami, Seyed Shahriar Arab

View

Download (PDF)

Tags: Algorithms, Bioinformatics, Biology, CUDA, nVidia, Particle swarm optimization, Sequence alignment, Tesla C1060

July 24, 2015 by hgpu

Multiple String Matching on a GPU using CUDAs

Charalampos S. Kouzinopoulos, Panagiotis D. Michailidis, Konstantinos G. Margaritis

View

Download (PDF)

Tags: Algorithms, Biology, Computer science, CUDA, nVidia, nVidia GeForce GTX 280, String matching

July 10, 2015 by hgpu

Modelling the Formation of Ordered Acentrosomal Microtubule Arrays

Alexander Ross Mace

View

Download (PDF)

Tags: Biology, Computer science, Monte Carlo simulation, OpenCL, Probability, Thesis

July 3, 2015 by hgpu

Improving the Mapping of Smith-Waterman Sequence Database Searches onto CUDA-Enabled GPUs

Liang-Tsung Huang, Chao-Chin Wu, Lien-Fu Lai, Yun-Ju Li

View

Download (PDF)

Tags: Bioinformatics, Biology, CUDA, Databases, nVidia, Sequence alignment, Smith-Waterman algorithm, Tesla C1060, Tesla K20

June 30, 2015 by hgpu

Concurrent Task Execution on the Intel Xeon Phi

Yucheng Zhu

View

Download (PDF)

Tags: Bioinformatics, Biology, Computer science, CUDA, Intel Xeon Phi, nVidia, OpenMP, Sequence alignment, Smith-Waterman algorithm, Tesla K20, Thesis

June 22, 2015 by hgpu

Comparative Study of the Parallelization of the Smith-Waterman Algorithm on OpenMP and Cuda C

Amadou Chaibou, Oumarou Sie

View

Download (PDF)

Tags: Bioinformatics, Biology, CUDA, nVidia, nVidia GeForce GTX 670, OpenMP, Sequence alignment, Smith-Waterman algorithm

June 22, 2015 by hgpu

Implementation of K-shortest Path Algorithm in GPU Using CUDA

Avadhesh Pratap Singh, Dhirendra Pratap Singh

View

Download (PDF)

Tags: Bioinformatics, Biology, Computer science, CUDA, nVidia, Sequence alignment, Tesla C2075

June 7, 2015 by hgpu

Genetically Improved BarraCUDA

W. B. Langdon, Brian Yee Hong Lam

View

Download (PDF)

Source codes

Tags: Algorithms, Benchmarking, Biology, CUDA, Genomics, nVidia, nVidia GeForce GT 730, Package, Tesla K20, Tesla K40, Tesla K80

June 1, 2015 by hgpu

Flexible, Fast and Accurate Sequence Alignment Profiling on GPGPU with PaSWAS

Sven Warris, Feyruz Yalcin, Katherine J. L. Jackson, Jan Peter Nap

View

Download (PDF)

Source codes

Tags: Bioinformatics, Biology, CUDA, nVidia, nVidia GeForce GTX 285, nVidia GeForce GTX 295, Package, Sequence alignment, Smith-Waterman algorithm, Tesla C1060

April 7, 2015 by hgpu

pharos: performance monitoring instrumentation for multi-FPGA systems

Performance Monitoring of Multi-FPGA Systems

Efficient Video Compression via Content-Adaptive Super-Resolution

CUDA Modular Polynomial (CUMODP) Library

Parallel Arbitrary-precision Integer Arithmetic

Energy-aware Task Scheduling with Deadline Constraint in DVFS-enabled Heterogeneous Clusters

CUDA Tutorial - Cryptanalysis of Classical Ciphers Using Modern GPUs and CUDA

CUDA Tutorial – Cryptanalysis of Classical Ciphers Using Modern GPUs and CUDA

Ginkgo: a high-performance linear algebra library for manycore systems, with a focus on sparse solution of linear systems

Porting a sparse linear algebra math library to Intel GPUs

Exa.TrkX: Machine Learning for Particle Track Reconstruction

Physics and Computing Performance of the Exa.TrkX TrackML Pipeline

A Compiler Infrastructure for Accelerator Generators

LIKWID: A Lightweight Performance-Oriented Tool Suite

ECM modeling and performance tuning of SpMV and Lattice QCD on A64FX

hls4ml: A package for machine learning inference in FPGAs

hls4ml: An Open-Source Codesign Workflow to Empower Scientific Low-Power Machine Learning Devices

See all packages

* * *

2021

April

27-29

Munich, Germany

9th International Workshop on OpenCL and SYCL, 2021

2020

December

10-14

Virtually in Barcelona, Spain

The 18th International Conference on High Performance Computing & Simulation (HPCS), 2020

2020

November

24-27

Naha, Okinawa, Japan

The Fifth International Workshop on GPU Computing and AI (GCA), 2020

2021

January

13-15

Shenzhen, China

2nd International Conference on Frontiers of Intelligent Manufacturing and Automation (CFIMA’21), 2021

2020

December

14-16

Bangkok, Thailand

International Conference on Cyber Physical Systems and IoT (CPSIOT’20), 2020

Add event

See all events

high performance computing on graphics processing units: hgpu.org

Applications

GeNN: a code generation framework for accelerated brain simulations

Pairwise Sequence Alignment with Gaps with GPU

Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain

Accelerating Protein Structure Prediction using Particle Swarm Optimization on GPU

Multiple String Matching on a GPU using CUDAs

Modelling the Formation of Ordered Acentrosomal Microtubule Arrays

Improving the Mapping of Smith-Waterman Sequence Database Searches onto CUDA-Enabled GPUs

Concurrent Task Execution on the Intel Xeon Phi

Comparative Study of the Parallelization of the Smith-Waterman Algorithm on OpenMP and Cuda C

Implementation of K-shortest Path Algorithm in GPU Using CUDA

Genetically Improved BarraCUDA

Flexible, Fast and Accurate Sequence Alignment Profiling on GPGPU with PaSWAS

Recent source codes

pharos: performance monitoring instrumentation for multi-FPGA systems

Efficient Video Compression via Content-Adaptive Super-Resolution

CUDA Modular Polynomial (CUMODP) Library

Energy-aware Task Scheduling with Deadline Constraint in DVFS-enabled Heterogeneous Clusters

CUDA Tutorial - Cryptanalysis of Classical Ciphers Using Modern GPUs and CUDA

Ginkgo: a high-performance linear algebra library for manycore systems, with a focus on sparse solution of linear systems

Exa.TrkX: Machine Learning for Particle Track Reconstruction

A Compiler Infrastructure for Accelerator Generators

LIKWID: A Lightweight Performance-Oriented Tool Suite

hls4ml: A package for machine learning inference in FPGAs

Most viewed papers (last 30 days)

Featured events

9th International Workshop on OpenCL and SYCL, 2021

The 18th International Conference on High Performance Computing & Simulation (HPCS), 2020

The Fifth International Workshop on GPU Computing and AI (GCA), 2020

2nd International Conference on Frontiers of Intelligent Manufacturing and Automation (CFIMA’21), 2021

International Conference on Cyber Physical Systems and IoT (CPSIOT’20), 2020