high performance computing on graphics processing units: hgpu.org

hgpu.org » Short read mapping

MaxSSmap: A GPU program for short read mapping with the maximum scoring subsequence

Usman Roshan

View

Download (PDF)

Tags: Bioinformatics, Biology, CUDA, nVidia, Short read mapping, Smith-Waterman algorithm, Tesla M2050

March 12, 2014 by hgpu

Size Matters: Space/Time Tradeoffs to Improve GPGPU Applications Performance

Abdullah Gharaibeh, Matei Ripeanu

View

Download (PDF)

Source codes

Tags: Bioinformatics, Biology, Computational biology, CUDA, nVidia, nVidia GeForce 8800 GTX, Package, Sequence alignment, Short read mapping, Suffix trees

February 27, 2011 by hgpu

Optimizing data intensive GPGPU computations for DNA sequence alignment

Cole Trapnell, Michael C. Schatz

View

Download (PDF)

Source codes

Tags: Bioinformatics, Biology, Computational biology, CUDA, nVidia, nVidia GeForce 8800 GTX, Package, Sequence alignment, Short read mapping, Suffix trees

October 30, 2010 by hgpu

kEDM: A Performance-portable Implementation of Empirical Dynamic Modeling using Kokkos

cuSZ: CUDA-Based Error-Bounded Lossy Compressor for Scientific Data

cuSZ(x): Optimizing Error-Bounded Lossy Compression for Scientific Data on GPUs

TornadoVM

Automatically Exploiting the Memory Hierarchy of GPUs through Just-in-Time Compilation

Floyd-Warshall function of this implementation for Intel Xeon Phi Knights Landing

Comparison of HPC Architectures for Computing All-Pairs Shortest Paths. Intel Xeon Phi KNL vs NVIDIA Pascal

NPBench: A Benchmarking Suite for High-Performance NumPy

PeriPy - A High Performance OpenCL Peridynamics Package

PeriPy – A High Performance OpenCL Peridynamics Package

PoCL: Portable Computing Language

Performance Evaluation and Improvements of the PoCL Open-Source OpenCL Implementation on Intel CPUs

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

MaxSSmap: A GPU program for short read mapping with the maximum scoring subsequence

Size Matters: Space/Time Tradeoffs to Improve GPGPU Applications Performance

Optimizing data intensive GPGPU computations for DNA sequence alignment

Recent source codes

Chapel-GPU: GPUIterator and GPUAPI module for Chapel

StreamBrain: a framework for implementing BCPNN networks in Python3

DLIO Benchmark

kEDM: A Performance-portable Implementation of Empirical Dynamic Modeling using Kokkos

cuSZ: CUDA-Based Error-Bounded Lossy Compressor for Scientific Data

TornadoVM

Floyd-Warshall function of this implementation for Intel Xeon Phi Knights Landing

NPBench: A Benchmarking Suite for High-Performance NumPy

PeriPy - A High Performance OpenCL Peridynamics Package

PoCL: Portable Computing Language

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