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Assessing opportunities of SYCL for biological sequence alignment on GPU-based systems

Manuel Costanzo, Enzo Rucci, Carlos García-Sanchez, Marcelo Naiouf, Manuel Prieto-Matías

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Tags: AMD Radeon RX 6700 XT, AMD Radeon RX Vega 6, ATI, Bioinformatics, Biology, Computational biology, CUDA, Heterogeneous systems, Intel Arc A770, Intel UHD 630, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX 980, nVidia GeForce RTX 2070, nVidia GeForce RTX 3090, nVidia V100, oneAPI, Package, Sequence alignment, SYCL

February 25, 2024 by hgpu

Comparing Performance and Portability between CUDA and SYCL for Protein Database Search on NVIDIA, AMD, and Intel GPUs

Manuel Costanzo, Enzo Rucci, Carlos García Sánchez, Marcelo Naiouf, Manuel Prieto-Matías

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Tags: AMD Radeon RX 6700 XT, ATI, Bioinformatics, Biology, Computer science, CUDA, Intel, Intel UHD 630, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX 980, nVidia GeForce RTX 2070, nVidia GeForce RTX 3070, nVidia GeForce RTX 3090, oneAPI, Programming Languages, Smith-Waterman algorithm, SYCL, Tesla V100

September 24, 2023 by hgpu

Deep Language Models for Software Testing and Optimisation

Foivos Tsimpourlas

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Tags: Benchmarking, Computer science, Deep learning, nVidia, nVidia GeForce GTX 1080, nVidia GeForce Titan X, OpenCL, Package, Software Engineering, Thesis

June 25, 2023 by hgpu

BenchDirect: A Directed Language Model for Compiler Benchmarks

Foivos Tsimpourlas, Pavlos Petoumenos, Min Xu, Chris Cummins, Kim Hazelwood, Ajitha Rajan, Hugh Leather

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Tags: Benchmarking, Compilers, Computer science, nVidia, nVidia GeForce GTX 1080, OpenCL, Package

March 12, 2023 by hgpu

Auto-SpMV: Automated Optimizing SpMV Kernels on GPU

Mina Ashoury, Mohammad Loni, Farshad Khunjush, Masoud Daneshtalab

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Tags: Computer science, CUDA, Energy efficiency, Linear Algebra, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX 1650, Sparse matrix

February 26, 2023 by hgpu

Assessing Opportunities of SYCL and Intel oneAPI for Biological Sequence Alignment

Manuel Costanzo, Enzo Rucci, Carlos García Sánchez, Marcelo Naiouf, Manuel Prieto-Matías

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Tags: Bioinformatics, Biology, Computational biology, Computer science, CUDA, Heterogeneous systems, Intel, Intel UHD 630, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX 980, nVidia GeForce RTX 2070, nVidia GeForce RTX 3090, OpenCL, Sequence alignment, SYCL, Tesla V100

November 27, 2022 by hgpu

BenchPress: A Deep Active Benchmark Generator

Foivos Tsimpourlas, Pavlos Petoumenos, Min Xu, Chris Cummins, Kim Hazelwood, Ajitha Rajan, Hugh Leather

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Tags: Benchmarking, Code generation, Computer science, Deep learning, nVidia, nVidia GeForce GTX 1080, OpenCL, Package, PyTorch

August 21, 2022 by hgpu

Fast GPU bounding boxes on tree-structured scenes

Raph Levien

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Tags: 3D Graphics and Realism, AMD Radeon RX 5700 XT, ATI, GLSL, HLSL, nVidia, nVidia GeForce GTX 1080, Package, Rendering, Vulkan

May 29, 2022 by hgpu

GPU-based JSON data processing using structural indexes

Koen R. Vlaswinkel

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Tags: Computer science, CUDA, Java, nVidia, nVidia GeForce GTX 1080, Package, Python, Thesis

May 15, 2022 by hgpu

Performance study on GPU offloading techniques using the Gauss matrix inverse algorithm

Yannik Könneker

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Tags: Computer science, CUBLAS, CUDA, Linear Algebra, nVidia, nVidia GeForce GTX 1080, OpenACC, OpenCL, Package, Performance, Tesla V100, Thesis

April 17, 2022 by hgpu

Bit-GraphBLAS: Bit-Level Optimizations of Matrix-Centric Graph Processing on GPU

Jou-An Chen, Hsin-Hsuan Sung, Nathan Tallent, Kevin Barker, Xipeng Shen, Ang Li

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Tags: BLAS, Computer science, CUDA, Linear Algebra, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX Titan V, Package, Sparse

January 30, 2022 by hgpu

Evaluation of Pseudo-Random Number Generation on GPU Cards

Tair Askar, Bekdaulet Shukirgaliyev, Martin Lukac, Ernazar Abdikamalov

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Tags: Computer science, CUDA, nVidia, nVidia GeForce GTX 1080, nVidia GeForce GTX 1080 Ti, nVidia GeForce RTX 3080, nVidia GeForce RTX 3090, Pseudo-random number generators

December 19, 2021 by hgpu

Over-synchronization in GPU Programs

profile_util: simple C++ library to report memory, timing, thread affinity

Profile Util library: A quick and easy way to get MPI, OpenMP and GPU runtime information

MaC: Mamba CPU performance predictor

MambaCPU: Enhanced Correlation Mining with State Space Models for CPU Performance Prediction

Mixed-precision finite element kernels

Mixed-precision finite element kernels and assembly: Rounding error analysis and hardware acceleration

SHMT: The Simultaneous and Heterogenous Multithreading project

General-Purpose Computing on Tensor Processors

Superpipeline: A Universal Approach for Reducing GPU Memory Usage in Large Models

EnergyUCB-Bandit

Online Energy Optimization in GPUs: A Multi-Armed Bandit Approach

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high performance computing on graphics processing units: hgpu.org

Assessing opportunities of SYCL for biological sequence alignment on GPU-based systems

Comparing Performance and Portability between CUDA and SYCL for Protein Database Search on NVIDIA, AMD, and Intel GPUs

Deep Language Models for Software Testing and Optimisation

BenchDirect: A Directed Language Model for Compiler Benchmarks

Auto-SpMV: Automated Optimizing SpMV Kernels on GPU

Assessing Opportunities of SYCL and Intel oneAPI for Biological Sequence Alignment

BenchPress: A Deep Active Benchmark Generator

Fast GPU bounding boxes on tree-structured scenes

GPU-based JSON data processing using structural indexes

Performance study on GPU offloading techniques using the Gauss matrix inverse algorithm

Bit-GraphBLAS: Bit-Level Optimizations of Matrix-Centric Graph Processing on GPU

Evaluation of Pseudo-Random Number Generation on GPU Cards

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Over-synchronization in GPU Programs

profile_util: simple C++ library to report memory, timing, thread affinity

MaC: Mamba CPU performance predictor

Mixed-precision finite element kernels

SHMT: The Simultaneous and Heterogenous Multithreading project

Superpipeline: A Universal Approach for Reducing GPU Memory Usage in Large Models

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