动态评估微生物生态学 (DAME)：一个用于交互式分析和可视化微生物测序数据的网络应用程序。
Dynamic assessment of microbial ecology (DAME): a web app for interactive analysis and visualization of microbial sequencing data.
机构信息
Arkansas Children's Nutrition Center, Little Rock, AR 72202, USA.
Department of Pediatrics, University of Arkansas for Medical Sciences, Little Rock, AR 72202, USA.
出版信息
Bioinformatics. 2018 Mar 15;34(6):1050-1052. doi: 10.1093/bioinformatics/btx686.
SUMMARY
Dynamic assessment of microbial ecology (DAME) is a Shiny-based web application for interactive analysis and visualization of microbial sequencing data. DAME provides researchers not familiar with R programming the ability to access the most current R functions utilized for ecology and gene sequencing data analyses. Currently, DAME supports group comparisons of several ecological estimates of α-diversity and β-diversity, along with differential abundance analysis of individual taxa. Using the Shiny framework, the user has complete control of all aspects of the data analysis, including sample/experimental group selection and filtering, estimate selection, statistical methods and visualization parameters. Furthermore, graphical and tabular outputs are supported by R packages using D3.js and are fully interactive.
AVAILABILITY AND IMPLEMENTATION
DAME was implemented in R but can be modified by Hypertext Markup Language (HTML), Cascading Style Sheets (CSS), and JavaScript. It is freely available on the web at https://acnc-shinyapps.shinyapps.io/DAME/. Local installation and source code are available through Github (https://github.com/bdpiccolo/ACNC-DAME). Any system with R can launch DAME locally provided the shiny package is installed.
CONTACT
摘要
动态评估微生物生态学（DAME）是一个基于 Shiny 的网络应用程序，用于交互式分析和可视化微生物测序数据。DAME 为不熟悉 R 编程的研究人员提供了访问当前用于生态学和基因测序数据分析的最先进的 R 功能的能力。目前，DAME 支持几种 α 多样性和 β 多样性生态估计的组比较，以及个体分类群的差异丰度分析。使用 Shiny 框架，用户可以完全控制数据分析的各个方面，包括样本/实验组选择和过滤、估计选择、统计方法和可视化参数。此外，使用 D3.js 的 R 包支持图形和表格输出，并具有完全交互性。
可用性和实现
DAME 是用 R 语言实现的，但可以通过超文本标记语言（HTML）、层叠样式表（CSS）和 JavaScript 进行修改。它可以在网络上免费访问，网址是 https://acnc-shinyapps.shinyapps.io/DAME/。本地安装和源代码可以通过 Github（https://github.com/bdpiccolo/ACNC-DAME）获得。任何具有 R 的系统都可以在本地启动 DAME，前提是安装了 shiny 包。
Zotero 插件