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- J. Gregory Caporaso
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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- Kyle Bittinger
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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- Frederic D. Bushman
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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- Todd Z. DeSantis
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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- Gary L. Andersen
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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- Rob Knight
- 1 Department of Chemistry and Biochemistry, University of Colorado at Boulder, Boulder, CO, 2 Department of Microbiology, University of Pennsylvania School of Medicine, Philadelphia, PA and 3 Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
書誌事項
- 公開日
- 2009-11-13
- 権利情報
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- http://creativecommons.org/licenses/by-nc/2.5/uk/
- DOI
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- 10.1093/bioinformatics/btp636
- 公開者
- Oxford University Press (OUP)
この論文をさがす
説明
<jats:title>Abstract</jats:title> <jats:p>Motivation: The Nearest Alignment Space Termination (NAST) tool is commonly used in sequence-based microbial ecology community analysis, but due to the limited portability of the original implementation, it has not been as widely adopted as possible. Python Nearest Alignment Space Termination (PyNAST) is a complete reimplementation of NAST, which includes three convenient interfaces: a Mac OS X GUI, a command-line interface and a simple application programming interface (API).</jats:p> <jats:p>Results: The availability of PyNAST will make the popular NAST algorithm more portable and thereby applicable to datasets orders of magnitude larger by allowing users to install PyNAST on their own hardware. Additionally because users can align to arbitrary template alignments, a feature not available via the original NAST web interface, the NAST algorithm will be readily applicable to novel tasks outside of microbial community analysis.</jats:p> <jats:p>Availability: PyNAST is available at http://pynast.sourceforge.net.</jats:p> <jats:p>Contact: rob.knight@colorado.edu</jats:p>
収録刊行物
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- Bioinformatics
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Bioinformatics 26 (2), 266-267, 2009-11-13
Oxford University Press (OUP)