检索结果-内蒙古大学图书馆

distributed computing in image analysis using open source frameworks and application to image sharpness assessment of histological whole slide images

引用

DIAGNOSTIC PATHOLOGY 2011年第1期6卷 1-5页

作者： Zerbe, Norman Hufnagl, Peter Schluens, Karsten Charite Inst Pathol D-10117 Berlin Germany Univ Appl Sci Berlin D-12459 Berlin Germany

Background: Automated image analysis on virtual slides is evolving rapidly and will play an important role in the future of digital pathology. Due to the image size, the computational cost of processing whole slide images (WSIs) in full resolution is immense. Moreover, image analysis requires well focused images in high magnification. methods: We present a system that merges virtual microscopy techniques, open source image analysis software, and distributed parallel processing. We have integrated the parallel processing framework JPPF, so batch processing can be performed distributed and in parallel. All resulting meta data and image data are collected and merged. As an example the system is applied to the specific task of image sharpness assessment. imageJ is an open source image editing and processing framework developed at the NIH having a large user community that contributes image processing algorithms wrapped as plug-ins in a wide field of life science applications. We developed an imageJ plug-in that supports both basic interactive virtual microscope and batch processing functionality. For the application of sharpness inspection we employ an approach with non-overlapping tiles. Compute nodes retrieve image tiles of moderate size from the streaming server and compute the focus measure. Each tile is divided into small sub images to calculate an edge based sharpness criterion which is used for classification. The results are aggregated in a sharpness map. Results: Based on the system we calculate a sharpness measure and classify virtual slides into one of the following categories - excellent, okay, review and defective. Generating a scaled sharpness map enables the user to evaluate sharpness of WSIs and shows overall quality at a glance thus reducing tedious assessment work. Conclusions: Using sharpness assessment as an example, the introduced system can be used to process, analyze and parallelize analysis of whole slide images based on open source software.

关键词： Virtual Slide Focus Measure Virtual Microscopy Stream Server Slide image

来源：评论

学校读者我要写书评

暂无评论

Hybrid CPU-GPU Solver for Gradient Domain processing of Massive images

Hybrid CPU-GPU Solver for Gradient Domain Processing of Mass...

引用

17th IEEE International conference on parallel and distributed Systems (ICPADS)

作者： Philip, Sujin Summa, Brian Pascucci, Valerio Bremer, Peer-Timo Sci Comp & Imaging Inst Salt Lake City UT USA Lawrence Livermore Natl Lab Livermore CA USA

ISBN: (纸本)9780769545769

Gradient domain processing is a computationally expensive image processing technique. Its use for processing massive images, giga or terapixels in size, can take several hours with serial techniques. To address this challenge, parallel algorithms are being developed to make this class of techniques applicable to the largest images available with running times that are more acceptable to the users. To this end we target the most ubiquitous form of computing power available today, which is small or medium scale clusters of commodity hardware. Such clusters are continuously increasing in scale, not only in the number of nodes, but also in the amount of parallelism available within each node in the form of multicore CPUs and GPUs. In this paper we present a hybrid parallel implementation of gradient domain processing for seamless stitching of gigapixel panoramas that utilizes MPI, threading and a CUDA based GPU component. We demonstrate the performance and scalability of our implementation by presenting results from two GPU clusters processing two large data sets.

关键词： hybrid programming gpgpu cluster gradient domain image processing

来源：评论

学校读者我要写书评

暂无评论

Matching of a Huge Set of MR images with a parallel processing Model

引用

JOURNAL OF MEDICAL SYSTEMS 2011年第5期35卷 795-800页

作者： Chen, Yuwen Chen, Yue Zhejiang Univ Coll Comp Sci Hangzhou 310003 Zhejiang Peoples R China

Matching medical image data is a key factor for appropriate computer aided diagnosis. For the past several decades, many image processing technologies have been developed and discussed. However, most of the methods are only of theoretical interest because the time complexity of the matching methods is too high for realistic handling of huge amounts of existing medical images. This paper presents a parallel processing model for matching huge amounts of MR images. A feature vector of an MR image is defined by professionals specifically in the area of neuroscience. Then a matching algorithm is developed based on matching the feature vectors. The algorithm is shown to be suitable for parallel process, and provides acceptable results. The experiments show that the overhead of synchronizing the parallel process is less significant than the improvement of the overall efficiency.

关键词： parallel processing model image matching Feature vector

来源：评论

学校读者我要写书评

暂无评论

Performance Prediction of distributed Applications Using Block Benchmarking methods

Performance Prediction of Distributed Applications Using Blo...

引用

19th International Euromicro conference on parallel, distributed and Network-Based processing (PDP)

作者： Cornea, Bogdan Florin Bourgeois, Julien Univ Franche Comte LIFC 1 Cours Leprince Ringuet F-25201 Montbeliard France

ISBN: (纸本)9780769543284

An ongoing work is presented for accurately predicting the performance of distributed applications in heterogeneous systems. We are developing dPerf, a tool built using the Rose framework for performing static analysis and an automatic instrumentation on the input source code of programs written in C, C++ or Fortran. The accuracy in predicting program computation time resides in using hardware counters, as well as in applying two block benchmarking techniques that we propose in this paper. The current work makes use of a network simulator in order to calculate the communication time used in our approach. Afterwards, the computation and communication times are being summed up obtaining an estimation of the distributed application execution time. The approach is proven experimentally using NAS Integer Sort benchmark, the communications being simulated with SimGrid.

关键词： dPerf performance prediction block benchmarking static analysis trace-based simulation heterogeneous systems MPI P2PSAP

来源：评论

学校读者我要写书评

暂无评论

A Unified Framework for Building High Performance DVEs

A Unified Framework for Building High Performance DVEs

引用

International conference on Graphic and image processing (ICGIP)

作者： Lei, Kaibin Ma, Zhixia Xiong, Hua SW Univ Nationalities Coll Comp Sci & Technol Chengdu Peoples R China Hangzhou Real Time Digital Media Co Ltd Virtual Real Grp Hangzhou Peoples R China

ISBN: (纸本)9780819489326

A unified framework for integrating PC cluster based parallel rendering with distributed virtual environments (DVEs) is presented in this paper. While various scene graphs have been proposed in DVEs, it is difficult to enable collaboration of different scene graphs. This paper proposes a technique for non-distributed scene graphs with the capability of object and event distribution. With the increase of graphics data, DVEs require more powerful rendering ability. But general scene graphs are inefficient in parallel rendering. The paper also proposes a technique to connect a DVE and a PC cluster based parallel rendering environment. A distributed multi-player video game is developed to show the interaction of different scene graphs and the parallel rendering performance on a large tiled display wall.

关键词： distributed virtual environment parallel rendering scene graph

来源：评论

学校读者我要写书评

暂无评论

A next generation sequence processing and analysis platform with integrated cloud-storage and high performance computing resources 12

A next generation sequence processing and analysis platform ...

引用

Proceedings of the ACM conference on Bioinformatics, Computational Biology and Biomedicine

作者： Jeremy C. Morgan Robert W. Chapman Paul E. Anderson College of Charleston Charleston SC Hollings Marine Laboratory Charleston SC

ISBN: (纸本)9781450316705

The development of Next-Generation Sequencing, or NGS, has heightened the throughput of traditional sequencing by using RNA reads to work backward, assembling a transcriptome from expressed fragments. These methods are designed to lower the cost of DNA sequencing by analyzing vast quantities of RNA fragments but have led to computational and storage obstacles. RNA sequencing produces large files that can be in excess of 20GB, making them unwieldy to the general researcher. Vast data resources have been created to extract the information contained in these massively parallel data. These resources and their associated tools are heterogeneous and highly distributed. This requires the scientist to create and execute highly complex customized analyses that involve gathering and organizing data from heterogeneous sources while interfacing with a variety of software tools. This is often infeasible without the support of computer specialists and significant hardware *** objective of this work is to combine the strengths of the scientific workflow project, Galaxy, with traditional high performance computing resources and affordable cloud-based data storage that encourages collaboration. The specific goals are to create a Galaxy tool that executes Trinity on a remote cluster and to develop software to download, upload, and manage NGS results to and from the cloud. Trinity is a computationally expensive de novo assembler that processes large RNA files to produce a FASTA transcriptome. Our system facilitates broad-based collaboration and distribution by building around the Google Drive cloud storage solution, where the processing of RNA sequences can be both shared and analyzed with a single upload and be reused for multiple purposes. The system is also able to remotely execute Trinity and other NGS tools on traditional high performance computing infrastructure that is often available as a shared resource at universities. Specifically, we develop a Trinity-based workfl

关键词：

来源：评论

学校读者我要写书评

暂无评论

Energy-aware Depth Map Generation for 3D Portrait on Android Systems

Energy-aware Depth Map Generation for 3D Portrait on Android...

引用

17th IEEE International conference on parallel and distributed Systems (ICPADS)

作者： Kao, Chia-Hui King, Chung-Ta Tseng, Shau-Yin Natl Tsing Hua Univ Dept Comp Sci Hsinchu 300 Taiwan Ind Technol Res Inst Informat & Commun Res Lab Hsinchu 300 Taiwan

ISBN: (纸本)9780769545769

The most important information in transforming a 2D image into a 3D image is the depth of each pixel in the image. However, a normal 2D image usually does not contain such information, which makes the transformation impossible. On the other hand, for certain types of pictures, such as personal portraits, it is possible to infer crude depth information from their known contexts and properties. Unfortunately, depth map generation is very involving and, if executed on a mobile phone, will consume a lot of energy. This is undesirable, particularly when the mobile device is running out of battery. The application must be aware of the energy status of the system, make appropriate tradeoffs, and then adapt accordingly. This paper presents such an energy-aware, 2D-to-3D image transformation tool for personal portraits on mobile phones. The tool will choose a suitable depth-map generation algorithm based on the remaining energy of the device. We will discuss how to make the tradeoffs and evaluate the idea on real machines.

关键词： depth map 3D image image processing energy-awareness embedded systems

来源：评论

学校读者我要写书评

暂无评论

parallelization of the SSAKE Genomics Application

Parallelization of the SSAKE Genomics Application

引用

19th International Euromicro conference on parallel, distributed and Network-Based processing (PDP)

作者： D'Agostino, Daniele Merelli, Ivan Warren, Rene Guffanti, Alessandro Milanesi, Luciano Clematis, Andrea Natl Res Council Italy Inst Appl Math & Informat Technol Genoa Italy Natl Res Council Italy Inst Biomed Technol Milan Italy BC Canc Agcy Genome Sci Ctr Vancouver BC Canada Bioinformat Genomnia Srl Milan Italy

ISBN: (纸本)9780769543284

Present advances in sequencing technology make possible to generate large amounts of data in short time. The problem is that fragments produced by these high-throughput methods are much shorter than in traditional Sanger sequencing, and this makes stringent the issue of exploiting an efficient sequence assembly algorithm. While two common approaches are actually applied to genome assembly, overlap graph and sequence hashing, the latter allows aggressive assembling of millions of short fragments with a reasonable memory and computational cost. In particular SSAKE, one of the first and more popular implementation of the sequence hashing algorithm, was designed to leverage the information from short sequence reads by stringently assembling them into contiguous sequences that can be used to characterize novel sequencing targets. In this paper we present a parallel version of this tool that enables a fast, lightweight and scalable solution for modern genome assembly.

关键词： parallel de novo assembly parallel ssake

来源：评论

学校读者我要写书评

暂无评论

Lempel-Ziv data compression on parallel and distributed systems

Lempel-Ziv data compression on parallel and distributed syst...

引用

1st International conference on Data Compression, Communication, and processing, CCP 2011

作者： De Agostino, Sergio Computer Science Department Sapienza University Rome Italy

ISBN: (纸本)9780769545288

We present a survey of results concerning Lempel-Ziv data compression on parallel and distributed systems, starting from the theoretical approach to parallel time complexity to conclude with the practical goal of designing distributed algorithms with low communication cost. An extension by Storer to image compression is also discussed. © 2011 IEEE.

关键词： Binary images

来源：评论

学校读者我要写书评

暂无评论

Issues and Challenges in Development of Massively-parallel Heterogeneous MPSoCs Based on Adaptable ASIPs

Issues and Challenges in Development of Massively-Parallel H...

引用

19th International Euromicro conference on parallel, distributed and Network-Based processing (PDP)

作者： Jozwiak, Lech Lindwer, Menno Eindhoven Univ Technol Eindhoven Netherlands Silicon Hive BV Eindhoven Netherlands

ISBN: (纸本)9780769543284

The recent spectacular progress in modern nanoelectronic technology enabled implementation of very complex multiprocessor systems on single chips (MPSoCs) and created a big stimulus towards development of MPSoCs for embedded applications. The increasingly complex MPSoCs are required to perform real-time computations to extremely tight schedules and to satisfy high demands regarding adaptability, as well as energy, area and cost efficiency. This results in serious design and development challenges. The opportunities created can effectively be exploited only through use of more adequate system architectures and more integrated system IP modules, supported by new effective design methods and electronic design automation tools. This paper focuses on mastering the automatic architecture synthesis and application mapping for heterogeneous massively-parallel MPSoCs based on customizable application-specific instruction-set processors (ASIPs). It is related to a European project ASAM being currently executed in the framework of the ARTEMIS program. It presents the results of our analysis of the main problems that have to be solved and challenges to be faced in design of such heterogeneous customizable MPSoCs for modern demanding applications.

关键词： embedded systems heterogeneous multi-processor system-on-chip (MPSoC) customizable ASIPs architecture synthesis MPSoC and ASIP design automation

来源：评论

学校读者我要写书评

暂无评论

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案：

请选择收藏分类：

通借通还

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：