Cited By
View all- Zhao HWang SYuan X(2020)Detection of Pathogenic Microbe Composition Using Next-Generation Sequencing DataFrontiers in Genetics10.3389/fgene.2020.60309311Online publication date: 30-Nov-2020
Instrumenting Genomic Sequence Analysis Pipeline Mothur on Shared Memory Architecture
Authors: 
Junqi Yin, Bhanu Rekepalli, Pragneshkumar Patel, Chanda Drennen, Annette Summers EngelAuthors Info & Claims
Junqi Yin, Bhanu Rekepalli, Pragneshkumar Patel, Chanda Drennen, Annette Summers EngelAuthors Info & ClaimsArticle No.: 19, Pages 1 - 4
Abstract
Mothur is an open source bioinformatics pipeline used for biological sequence analysis that has gained increasing attention in the microbial ecology community. Because a large set of functionalities in Mothur are memory bound, it is well suited for shared memory architectures, such as the Nautilus supercomputer. In this paper, we present performance results for several commands in Mothur that are popular in the operational taxonomic unit analysis, and show that Nautilus can accelerate pipeline processes many orders of magnitude faster.
References
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Index Terms
- Instrumenting Genomic Sequence Analysis Pipeline Mothur on Shared Memory Architecture
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July 2014
445 pages
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In-Cooperation
- NSF: National Science Foundation
- Drexel University
- Indiana University: Indiana University
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Association for Computing Machinery
New York, NY, United States
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Published: 13 July 2014
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XSEDE '14
XSEDE '14: Annual Conference of the Extreme Science and Engineering Discovery Environment
July 13 - 18, 2014
GA, Atlanta, USA
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XSEDE '14 Paper Acceptance Rate 80 of 120 submissions, 67%;
Overall Acceptance Rate 129 of 190 submissions, 68%
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View all- Zhao HWang SYuan X(2020)Detection of Pathogenic Microbe Composition Using Next-Generation Sequencing DataFrontiers in Genetics10.3389/fgene.2020.60309311Online publication date: 30-Nov-2020
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