high performance computing on graphics processing units: hgpu.org

Ruibang Luo, Thomas Wong, Jianqiao Zhu, Chi-Man Liu, Edward Wu, Lap-Kei Lee, Haoxiang Lin, Wenjuan Zhu, David W. Cheung, Hing-Fung Ting, Siu-Ming Yiu, Chang Yu, Yingrui Li, Ruiqiang Li, Tak-Wah Lam

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Tags: Algorithms, Bioinformatics, Biology, CUDA, Next-Generation sequencing, nVidia, Package, Tesla C2070, Tesla M2050

February 25, 2013 by hgpu

G-SNPM – A GPU-based SNP mapping tool

Alessandro Orro, Andrea Manconi, Emanuele Manca, Giuliano Armano, Luciano Milanesi

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Tags: Algorithms, Bioinformatics, Biology, CUDA, Next-Generation sequencing, nVidia, nVidia GeForce GTX 480, Package, Python, Smith-Waterman algorithm

November 14, 2012 by hgpu

GHOSTM: A GPU-Accelerated Homology Search Tool for Metagenomics

Shuji Suzuki, Takashi Ishida, Ken Kurokawa, Yutaka Akiyama

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Tags: Algorithms, Biology, CUDA, Databases, Next-Generation sequencing, nVidia, Package, Tesla S1070

May 10, 2012 by hgpu

Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming

Jochen Blom, Tobias Jakobi, Daniel Doppmeier, Sebastian Jaenicke, Jorn Kalinowski, Jens Stoye, Alexander Goesmann

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Tags: Algorithms, Bioinformatics, Biology, CUDA, Next-Generation sequencing, nVidia, Package

May 10, 2011 by hgpu

Exact and complete short read alignment to microbial genomes using GPU programming

Jochen Blom, Tobias Jakobi, Daniel Doppmeier, Sebastian Jaenicke, Jorn Kalinowski, Jens Stoye, Alexander Goesmann

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Tags: Bioinformatics, Biology, CUDA, Next-Generation sequencing, nVidia, nVidia GeForce GTX 280, Package

April 11, 2011 by hgpu

DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI

Yongchao Liu, Bertil Schmidt, Douglas Maskell

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Tags: Bioinformatics, Biology, CUDA, MPI, Next-Generation sequencing, nVidia, OpenMP, Package, Tesla S1070

April 11, 2011 by hgpu

GPU-RMAP: Accelerating Short-Read Mapping on Graphics Processors

Ashwin M. Aji, Liqing Zhang, Wu C. Feng

Tags: Bioinformatics, Biology, Next-Generation sequencing, nVidia

March 9, 2011 by hgpu

A Versatile Software Systolic Execution Model for GPU Memory-Bound Kernels

blockgmf: Block based approaches to Matrix Factorization

Block based Singular Value Decomposition approach to matrix factorization for recommender systems

CU2CL: A prototype CUDA-to-OpenCL source-to-source translator

On the Portability of CPU-Accelerated Applications via Automated Source-to-Source Translation

GPU-based Parallel Computation Support for Stan

PANNA: Properties from Artificial Neural Network Architectures

Artifact Evaluation for Novel methodologies for predictable CPU-to-GPU command offloading

Novel Methodologies for Predictable CPU-To-GPU Command Offloading

tvm: Open deep learning compiler stack for cpu, gpu and specialized accelerators

A Unified Optimization Approach for CNN Model Inference on Integrated GPUs

picongpu: Particle-in-Cell Simulations for the Exascale Era

PIConGPU: Predictive Simulations of Laser-Particle Accelerators with Manycore Hardware

WCCV: Warp-coherent Condition Vectorization(on top of RV)

WCCV: Improving the Vectorization of IF-statements with Warp-Coherent Conditions

Triton: An Intermediate Language and Compiler for Tiled Neural Network Computations

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high performance computing on graphics processing units: hgpu.org

eccCL: parallelized GPU implementation of Ensemble Classifier Chains

Parallelization, Scalability, and Reproducibility in Next-Generation Sequencing Analysis

SW#db: GPU-accelerated exact sequence similarity database search

GPU-accelerated Computation for Statistical Analysis of the Next-Generation Sequencing Data

cuBLASTP: Fine-Grained Parallelization of Protein Sequence Search on a GPU

SOAP3-dp: Fast, Accurate and Sensitive GPU-based Short Read Aligner

G-SNPM – A GPU-based SNP mapping tool

GHOSTM: A GPU-Accelerated Homology Search Tool for Metagenomics

Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming

Exact and complete short read alignment to microbial genomes using GPU programming

DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI

GPU-RMAP: Accelerating Short-Read Mapping on Graphics Processors

Recent source codes

A Versatile Software Systolic Execution Model for GPU Memory-Bound Kernels

blockgmf: Block based approaches to Matrix Factorization

CU2CL: A prototype CUDA-to-OpenCL source-to-source translator

GPU-based Parallel Computation Support for Stan

PANNA: Properties from Artificial Neural Network Architectures

Artifact Evaluation for Novel methodologies for predictable CPU-to-GPU command offloading

tvm: Open deep learning compiler stack for cpu, gpu and specialized accelerators

picongpu: Particle-in-Cell Simulations for the Exascale Era

WCCV: Warp-coherent Condition Vectorization(on top of RV)

Triton: An Intermediate Language and Compiler for Tiled Neural Network Computations

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Featured events

7th International Workshop on OpenCL, 2019

Distributed Heterogeneous Programming in C/C++ (DHPCC++), 2019

3rd International Workshop on Theoretical Approaches to Performance Evaluation, Modeling and Simulation (TAPEMS), 2019

International Conference on Frontiers of Neural Networks (ICFNN), 2019

International Conference on Frontiers of Artificial Intelligence and Machine Learning (FAIML), 2019