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. 2011 Jun 15;27(12):1700-1.
doi: 10.1093/bioinformatics/btr196. Epub 2011 Apr 15.

VSports注册入口 - OTUbase: an R infrastructure package for operational taxonomic unit data

Daniel Beck  1 , Matt Settles, James A Foster
Affiliations

OTUbase: an R infrastructure package for operational taxonomic unit data (V体育平台登录)

Daniel Beck et al. Bioinformatics. .

Abstract

Summary: OTUbase is an R package designed to facilitate the analysis of operational taxonomic unit (OTU) data and sequence classification (taxonomic) data. Currently there are programs that will cluster sequence data into OTUs and/or classify sequence data into known taxonomies. However, there is a need for software that can take the summarized output of these programs and organize it into easily accessed and manipulated formats. OTUbase provides this structure and organization within R, to allow researchers to easily manipulate the data with the rich library of R packages currently available for additional analysis. VSports手机版.

Availability: OTUbase is an R package available through Bioconductor. It can be found at http://www. bioconductor. org/packages/release/bioc/html/OTUbase. html. V体育安卓版.

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Figures

Fig. 1.
Fig. 1.
Organization of data within OTUbase. Data analysis starts by either clustering or classifying the reads obtained from the sequencer with an extermal application. The clustering or classification results are collected by OTUbase along with read and quality data and sample metadata. OTUbase then organizes the data into an R object. The library of R tools can then be used to analyze and visualize the data.
See this image and copyright information in PMC

References

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