Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud

Di Tommaso Paolo; Orobitg Miquel; Guirado Fernando; Cores Fernado; Espinosa Toni; Notredame Cedric .

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Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud

机译：Cloud-Coffee：在T-Coffee软件包中基于并行一致性的多重对齐算法的实现及其在Amazon Elastic-Cloud上的基准测试

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摘要

We present the first parallel implementation of the T-Coffee consistency-based multiple aligner. We benchmark it on the Amazon Elastic Cloud (EC2) and show that the parallelization procedure is reasonably effective. We also conclude that for a web server with moderate usage (10K hits/month) the cloud provides a cost-effective alternative to in-house deployment.

机译：我们提出了基于T-Coffee一致性的多重对齐器的第一个并行实现。我们在Amazon Elastic Cloud（EC2）上对其进行了基准测试，并表明并行化过程是合理有效的。我们还得出结论，对于使用率适中（每月点击次数为1万次）的Web服务器，云提供了内部部署的经济高效的替代方案。

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来源
《Bioinformatics》 |2010年第15期|共2页
作者
Di Tommaso Paolo; Orobitg Miquel; Guirado Fernando; Cores Fernado; Espinosa Toni; Notredame Cedric .;
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正文语种 eng
中图分类生物工程学（生物技术）;
关键词
web server;

机译：网络服务器;

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专利

1. Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud [J] . Di Tommaso Paolo, Orobitg Miquel, Guirado Fernando, Bioinformatics . 2010,第15期

机译：Cloud-Coffee：在T-Coffee软件包中基于并行一致性的多重对齐算法的实现及其在Amazon Elastic-Cloud上的基准测试
2. Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures [J] . Taly J.-F., Magis C., Bussotti G., Nature protocols erecipes for researchers . 2011,第11期

机译：使用T-Coffee软件包构建蛋白质，RNA，DNA序列和3D结构的多个序列比对
3. T-Coffee: a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology extension [J] . Alberto Montanyola, Cedric Notredame, Ioannis Xenarios, Nucleic acids research . 2011,第suppla2期

机译：T-Coffee：使用结构信息和同源性扩展进行蛋白质和RNA序列多序列比对的Web服务器
4. PPCAS: Implementation of a Probabilistic Pairwise Model for Consistency-Based Multiple Alignment in Apache Spark [C] . Jordi Llados, Fernando Guirado, Fernando Cores International conference on algorithms and architectures for parallel processing . 2017

机译：PPCAS：Apache Spark中基于一致性的多重对齐的概率成对模型的实现
5. Parallel implementation and benchmarking in cluster architectures of one-dimensional discrete fourier transforms: A comparison using the row-column algorithm versus a novel formulation based on the bluestein/pseudocirculant algorithm. [D] . Velez Rodriguez, William. 2014

机译：一维离散傅里叶变换的群集体系结构中的并行实现和基准测试：使用行列算法与基于bluestein / pseudocirculant算法的新颖公式进行比较。
6. Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud [O] . Paolo Di Tommaso, Miquel Orobitg, Fernando Guirado, -1

机译：Cloud-Coffee：在T-Coffee软件包中基于并行一致性的多重对齐算法的实现及其在Amazon Elastic-Cloud上的基准测试
7. Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud [O] . Di Tommaso, Paolo, Orobitg, Miquel, Guirado, Fernando, 2010

机译：Cloud-Coffee：T-Coffee软件包中基于并行一致性的多重对齐算法的实现及其在Amazon Elastic-Cloud上的基准测试
8. Performance of a benchmark parallel implementation of the Van Slyke and Wets algorithm for two-stage stochastic programs on the Sequent/Balance. [R] . Ariyawansa, K. A., Hudson, D. D. 1989

机译：用于sequent / Balance的两阶段随机程序的Van slyke和Wets算法的基准并行实现的性能。

Cloud-Coffee: implementation of a parallel consistency-based multiple alignment algorithm in the T-Coffee package and its benchmarking on the Amazon Elastic-Cloud

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