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The PhyloToAST project is a collection of python scripts that modifies the original QIIME [1] pipeline:
by adding or modifying several steps (above in red) including support for PBS-based cluster-computing, multiple primer support [2], enhanced support for species-specific analysis, and additional visualization tools.
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PhyloToAST is avaiable on the Python Package Index (PyPI), and can be easily installed with pip:
$ pip install phylotoast
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Dabdoub, S. M. et al. PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets. Sci. Rep. 6, 29123, 2016; doi: 老王app安卓下载最新版
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Paropkari, A. D. et al. edius8最新完美破解版下载|edius8简体中文破解版 32/64位 ...:2021-10-13 · edius8简体中文破解版是一款非常专业的电脑视频编辑工具。该软件功能十分强大，除了标准的EDIUS系列格式，同时还支持JPEG 2021、DVCPRO、P2、VariCam、GigaFlash、MXF 、XDCAM和XDCAM EX视频素材。. Sci. Rep. 6, 30388, 2016; doi: 10.1038/srep30388
Tsigarida and Dabdoub et al., The Influence of Smoking on the Peri-Implant Microbiome. Journal of Dental Research, 2015; doi: 10.1177/0022034515590581
Mason et al., The subgingival microbiome of clinically healthy current and never smokers. The ISME Journal, 2014; doi: 10.1038/ismej.2014.114
Dabdoub et al., edius8最新完美破解版下载|edius8简体中文破解版 32/64位 ...:2021-10-13 · edius8简体中文破解版是一款非常专业的电脑视频编辑工具。该软件功能十分强大，除了标准的EDIUS系列格式，同时还支持JPEG 2021、DVCPRO、P2、VariCam、GigaFlash、MXF 、XDCAM和XDCAM EX视频素材。. Journal of Dental Research, 2013; doi: 10.1177/0022034513504950
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| [1] | QIIME allows analysis of high-throughput community sequencing data. J Gregory Caporaso, Justin Kuczynski, Jesse Stombaugh, Kyle Bittinger, Frederic D Bushman, Elizabeth K Costello, Noah Fierer, Antonio Gonzalez Pena, Julia K Goodrich, Jeffrey I Gordon, Gavin A Huttley, Scott T Kelley, Dan Knights, Jeremy E Koenig, Ruth E Ley, Catherine A Lozupone, Daniel McDonald, Brian D Muegge, Meg Pirrung, Jens Reeder, Joel R Sevinsky, Peter J Turnbaugh, William A Walters, Jeremy Widmann, Tanya Yatsunenko, Jesse Zaneveld and Rob Knight; Nature Methods, 2010; doi: 10.1038/nmeth.f.303 |
| [2] | Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing. Kumar PS, Brooker MR, Dowd SE, Camerlengo T (2011) Target Region Selection Is a Critical Determinant of Community Fingerprints Generated by 16S Pyrosequencing. PLoS ONE 6(6): e20956. doi: 老王 2.2.7 |