McMurdie Paul J, Holmes Susan
Department of Statistics, Stanford University, Stanford, CA 94305, USA.
Bioinformatics. 2015 Jan 15;31(2):282-3. doi: 10.1093/bioinformatics/btu616. Epub 2014 Sep 26.
We have created a Shiny-based Web application, called Shiny-phyloseq, for dynamic interaction with microbiome data that runs on any modern Web browser and requires no programming, increasing the accessibility and decreasing the entrance requirement to using phyloseq and related R tools. Along with a data- and context-aware dynamic interface for exploring the effects of parameter and method choices, Shiny-phyloseq also records the complete user input and subsequent graphical results of a user's session, allowing the user to archive, share and reproduce the sequence of steps that created their result-without writing any new code themselves.
Shiny-phyloseq is implemented entirely in the R language. It can be hosted/launched by any system with R installed, including Windows, Mac OS and most Linux distributions. Information technology administrators can also host Shiny--phyloseq from a remote server, in which case users need only have a Web browser installed. Shiny-phyloseq is provided free of charge under a GPL-3 open-source license through GitHub at http://joey711.github.io/shiny-phyloseq/.
我们创建了一个基于Shiny的Web应用程序，名为Shiny-phyloseq，用于与微生物组数据进行动态交互，它可在任何现代Web浏览器上运行，无需编程，提高了可访问性并降低了使用phyloseq及相关R工具的入门要求。除了一个用于探索参数和方法选择效果的数据感知和上下文感知动态界面外，Shiny-phyloseq还记录用户会话的完整输入和后续图形结果，允许用户存档、共享和重现创建其结果的步骤序列，而无需用户自己编写任何新代码。
Shiny-phyloseq完全用R语言实现。它可以由任何安装了R的系统托管/启动，包括Windows、Mac OS和大多数Linux发行版。信息技术管理员也可以从远程服务器托管Shiny-phyloseq，在这种情况下，用户只需安装一个Web浏览器。Shiny-phyloseq在GPL-3开源许可下通过GitHub免费提供，网址为http://joey711.github.io/shiny-phyloseq/ 。
