high performance computing on graphics processing units: hgpu.org

hgpu.org » Microscopy

Visualization of Large Volumetric Multi-Channel Microscopy Data Streams on Standard PCs

Tobias Brix, Jorg-Stefan Prassni, Klaus Hinrichs

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Tags: ATI, Computer science, Graphics, Microscopy, OpenCL, Rendering, Visualization

July 11, 2014 by hgpu

Region Templates: Data Representation and Management for Large-Scale Image Analysis

George Teodoro, Tony Pan, Tahsin Kurc, Jun Kong, Lee Cooper, Scott Klasky, Joel Saltz

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Tags: Computer science, CUDA, Heterogeneous systems, Hybrid computing, Microscopy, nVidia, OpenCV, Tesla M2090

June 2, 2014 by hgpu

Comparative Performance Analysis of Intel Xeon Phi, GPU, and CPU

George Teodoro, Tahsin Kurc, Jun Kong, Lee Cooper, Joel Saltz

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Tags: Computer science, CUDA, Intel Phi, Intel Xeon Phi, Microscopy, nVidia, OpenMP, Performance, Task scheduling, Tesla K20

November 6, 2013 by hgpu

gEMpicker: A Highly Parallel GPU-Accelerated Particle Picking Tool for Cryo-Electron Microscopy

Thai V. Hoang, Xavier Cavin, Patrick Schultz, David W. Ritchie

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Tags: Algorithms, Biology, Cryo-EM, CUDA, Electron microscopy, FFT, Macromolecule, Microscopy, nVidia, Tesla C1060, Tesla C2075

October 24, 2013 by hgpu

gEMfitter: A Highly Parallel FFT-Based 3D Density Fitting Tool With GPU Texture Memory Acceleration

Thai V. Hoang, Xavier Cavin, David W. Ritchie

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Tags: Biology, Cryo-EM, CUDA, Electron microscopy, FFT, Macromolecule, Microscopy, nVidia, Tesla C2075

September 28, 2013 by hgpu

Evolutionary Algorithm for Optimizing Parameters of GPGPU-based Image Segmentation

Sandor Szenasi, Zoltan Vamossy

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Tags: Algorithms, CUDA, Genetic programming, Image processing, Microscopy, nVidia

August 30, 2013 by hgpu

Efficient bayesian multi-view deconvolution

Stephan Preibisch, Fernando Amat, Evangelia Stamataki, Mihail Sarov, Eugene Myers, Pavel Tomancak

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Source codes

Tags: Bayesian, Biology, CUDA, Microscopy, nVidia, nVidia Quadro 4000, Package

August 6, 2013 by hgpu

Image reconstruction in digital holographic microscopy on GPU

Andrej Krejcir

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Tags: Algorithms, CUDA, Image processing, Image reconstruction, Microscopy, nVidia, nVidia GeForce GTX 470, Optimization, Package, Thesis

July 21, 2013 by hgpu

3D Haar-Like Elliptical Features for Object Classification in Microscopy

Fernando Amat, Philipp J. Keller

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Tags: Computer vision, Microscopy, Wavelet

April 13, 2013 by hgpu

High-throughput Analysis of Large Microscopy Image Datasets on CPU-GPU Cluster Platforms

George Teodoro, Tony Pan, Tahsin M. Kurc, Jun Kong, Lee A. D. Cooper, Norbert Podhorszki, Scott Klasky, Joel H. Saltz

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Tags: CUDA, GPU cluster, Image processing, Microscopy, nVidia, Prefetch, Tesla M2090

January 6, 2013 by hgpu

Quasi-real-time analysis of dynamic near field scattering data using a graphics processing unit

Giovanni Cerchiari, Fabrizio Croccolo, Frederic Cardinaux, Frank Scheffold

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Tags: CUDA, Data acquisition, Microscopy, nVidia, Optics, Physics, Soft Condensed Matter, Tesla C2050

September 18, 2012 by hgpu

A Fast Parallel Implementation of Queue-based Morphological Reconstruction using GPUs

George Teodoro, Tony Pan, Tahsin M. Kurc, Lee Cooper, Jun Kong, Joel H. Saltz

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Tags: Algorithms, CUDA, Image processing, Microscopy, nVidia, nVidia GeForce GTX 580, Tesla C2070

February 5, 2012 by hgpu

gpu_tracker: Context manager and CLI that tracks the computational-resource-usage of a code block or shell command, particularly the GPU usage

gpu_tracker: Python package for tracking and profiling GPU utilization in both desktop and high-performance computing environments

LOOPer: a polyhedral compiler for expressing fast and portable data parallel algorithms

LOOPer: A Learned Automatic Code Optimizer For Polyhedral Compilers

OpenMC Monte Carlo Code

Performance Portable Monte Carlo Particle Transport on Intel, NVIDIA, and AMD GPUs

Polygeist: C/C++ frontend for MLIR

Retargeting and Respecializing GPU Workloads for Performance Portability

Parallel Gaussian process with kernel approximation in CUDA

Optical flow algorithms for SYCL

SYCL in the edge: performance and energy evaluation for heterogeneous acceleration

OpenMP5-Offload-OpenMC-Intel-PVC

Distributed OpenMP Offloading of OpenMC on Intel GPU MAX Accelerators

See all packages

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high performance computing on graphics processing units: hgpu.org

Visualization of Large Volumetric Multi-Channel Microscopy Data Streams on Standard PCs

Region Templates: Data Representation and Management for Large-Scale Image Analysis

Comparative Performance Analysis of Intel Xeon Phi, GPU, and CPU

gEMpicker: A Highly Parallel GPU-Accelerated Particle Picking Tool for Cryo-Electron Microscopy

gEMfitter: A Highly Parallel FFT-Based 3D Density Fitting Tool With GPU Texture Memory Acceleration

Evolutionary Algorithm for Optimizing Parameters of GPGPU-based Image Segmentation

Efficient bayesian multi-view deconvolution

Image reconstruction in digital holographic microscopy on GPU

3D Haar-Like Elliptical Features for Object Classification in Microscopy

High-throughput Analysis of Large Microscopy Image Datasets on CPU-GPU Cluster Platforms

Quasi-real-time analysis of dynamic near field scattering data using a graphics processing unit

A Fast Parallel Implementation of Queue-based Morphological Reconstruction using GPUs

Recent source codes

QArray

Celerity: High-level C++ for Accelerator Clusters

CIFAR-10 Airbench: 94% on CIFAR-10 in 3.29 second

gpu_tracker: Context manager and CLI that tracks the computational-resource-usage of a code block or shell command, particularly the GPU usage

LOOPer: a polyhedral compiler for expressing fast and portable data parallel algorithms

OpenMC Monte Carlo Code

Polygeist: C/C++ frontend for MLIR

Parallel Gaussian process with kernel approximation in CUDA

Optical flow algorithms for SYCL

OpenMP5-Offload-OpenMC-Intel-PVC

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