high performance computing on graphics processing units: hgpu.org

Applications

hgpu.org » Applications » Biology

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

Yongchao Liu, Bertil Schmidt, Douglas Maskell

View

Download (PDF)

Source codes

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

April 11, 2011 by hgpu

Accelerating global sequence alignment using CUDA compatible multi-core GPU

T.R.P. Siriwardena, D.N. Ranasinghe

Tags: Bioinformatics, Biology, CUDA, nVidia, Sequence alignment

April 10, 2011 by hgpu

A Parallel Gibbs Sampling Algorithm for Motif Finding on GPU

Linbin Yu, Yun Xu

Tags: Bioinformatics, Biology, CUDA, nVidia, Sequence matching

April 9, 2011 by hgpu

On accelerating iterative algorithms with CUDA: A case study on Conditional Random Fields training algorithm for biological sequence alignment

Zhihui Du, Zhaoming Yin, Wenjie Liu, D. Bader

Tags: Bioinformatics, Biology, CUDA, nVidia, Sequence alignment

April 8, 2011 by hgpu

A Hybrid Computational Grid Architecture for Comparative Genomics

A. Singh, Chen Chen, Weiguo Liu, W. Mitchell, B. Schmidt

Tags: Bioinformatics, Biology, Genetics, Sequence alignment

April 6, 2011 by hgpu

Enabling Energy-Efficient Analysis of Massive Neural Signals Using GPGPU

Dan Chen, Lizhe Wang, Shuaiting Wang, Muzhou Xiong, Gregor von Laszewski, Xiaoli Li

View

Download (PDF)

Tags: Biology, CUDA, Medicine, Neuroscience, nVidia, nVidia GeForce GTX 295, Signal processing

April 5, 2011 by hgpu

GPGPU-Aided Ensemble Empirical-Mode Decomposition for EEG Analysis During Anesthesia

Dan Chen, Duan Li, Muzhou Xiong, Hong Bao, Xiaoli Li

Tags: Biology, Medicine, Signal processing

April 5, 2011 by hgpu

Neuromorphic models on a GPGPU cluster

Bing Han, T.M. Taha

Tags: Biology, GPU cluster, MPI, Neuroscience, nVidia, Tesla S1070

April 5, 2011 by hgpu

GPGPU implementation of a synaptically optimized, anatomically accurate spiking network simulator

Ruggero Scorcioni

View

Download (PDF)

Tags: Biology, CUDA, Neuroscience, nVidia

April 4, 2011 by hgpu

The optimization of parallel Smith-Waterman sequence alignment using on-chip memory of GPGPU

Qian Zhang, Hong An, Gu Liu, Wenting Han, Ping Yao, Mu Xu, Xiaoqiang Li

Tags: Bioinformatics, Biology, CUDA, nVidia, Sequence alignment, Smith-Waterman algorithm

April 4, 2011 by hgpu

Poster: GPU-accelerated rigid body fitting of atomic structures into electron density maps

Edward W. Lowe Jr., Nils Woetzel, Jens Meiler

View

Download (PDF)

Source codes

Tags: ATI, ATI Radeon HD 5970, Biology, Cryo-EM, Molecular modeling, nVidia, nVidia GeForce GTX 470, OpenCL, Package, Poster, Tesla C1060, Tesla C2050

April 1, 2011 by hgpu

Poster: GPU-accelerated artificial neural network for QSAR modeling

Edward W. Lowe Jr., Nils Woetzel, Jens Meiler

View

Download (PDF)

Tags: ATI, ATI Radeon HD 5970, Biology, Neural networks, nVidia, nVidia GeForce GTX 470, OpenCL, Poster, Tesla C1060, Tesla C2050

April 1, 2011 by hgpu

Code generated HPC Kernels Using Llama-2-70b

Comparing Llama-2 and GPT-3 LLMs for HPC kernels generation

Scope is all you need: Transforming LLMs for HPC Code

pocl - Portable Computing Language

PoCL-R: An Open Standard Based Offloading Layer for Heterogeneous Multi-Access Edge Computing with Server Side Scalability

HPAC-Offload: Accelerating HPC Applications with Portable Approximate Computing on the GPU

openCLDispatcher

Novel insights on atomic synchronization for sort-based group-by on GPUs

CEED Benchmarks

Performant low-order matrix-free finite element kernels on GPU architectures

Sieve: Stratified GPU-Compute Workload Sampling

* * *

high performance computing on graphics processing units: hgpu.org

Applications

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

Accelerating global sequence alignment using CUDA compatible multi-core GPU

A Parallel Gibbs Sampling Algorithm for Motif Finding on GPU

On accelerating iterative algorithms with CUDA: A case study on Conditional Random Fields training algorithm for biological sequence alignment

A Hybrid Computational Grid Architecture for Comparative Genomics

Enabling Energy-Efficient Analysis of Massive Neural Signals Using GPGPU

GPGPU-Aided Ensemble Empirical-Mode Decomposition for EEG Analysis During Anesthesia

Neuromorphic models on a GPGPU cluster

GPGPU implementation of a synaptically optimized, anatomically accurate spiking network simulator

The optimization of parallel Smith-Waterman sequence alignment using on-chip memory of GPGPU

Poster: GPU-accelerated rigid body fitting of atomic structures into electron density maps

Poster: GPU-accelerated artificial neural network for QSAR modeling

Recent source codes

Code generated HPC Kernels Using Llama-2-70b

Scope is all you need: Transforming LLMs for HPC Code

pocl - Portable Computing Language

HPAC-Offload: Accelerating HPC Applications with Portable Approximate Computing on the GPU

openCLDispatcher

CEED Benchmarks

Sieve: Stratified GPU-Compute Workload Sampling

EngineCL: Usability and Performance in Heterogeneous Computing

Ginkgo: high-performance linear algebra library for manycore systems

AlphaFold2

Most viewed papers (last 30 days)