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Development of an Interactive Web Application "Shiny App for Frequency Analysis on Homo sapiens Genome (SAFA-HsG)".
Interdisciplinary Sciences: Computational Life Sciences ( IF 4.8 ) Pub Date : 2019-07-03 , DOI: 10.1007/s12539-019-00340-z
Balamurugan Sivaprakasam 1 , Prasanna Sadagopan 1
Affiliation  

The web application "Shiny App for Frequency Analysis on Homo sapiens Genome (SAFA-HsG)" was developed using R programming-based bioconductor packages and shiny framework. Through the app, preliminary descriptive data analysis on nucleotide frequency, and CpG island, CpG non-island, and CpG island shores and shelves (downstream and upstream) of human reference genome can be carried out, which will help biologists to work on human epigenomics. Table view of these analyses of all chromosomes can be visualized and downloaded by the end users. Similarly, the respective comparative plots can be used for CpG sites comparison. In addition, to introduce the personal genome project, the present study has done a preliminary work on few raw data and are included in the app, which will create interest on personal genome information. The app is hosted on https://SAFA-HsG.shinyapps.io/home/. It is a multi-platform application and can be initiated locally from any computer that has or has not installed R. It is a user-friendly interface, which will allow a biologist, even who has little computer knowledge to access and analyze further.

中文翻译:

交互式Web应用程序“用于智人基因组频率分析的发光应用程序(SAFA-HsG)”的开发。

Web应用程序“用于智人基因组频率分析的发光应用程序(SAFA-HsG)”是使用基于R编程的生物导体包装和发光框架开发的。通过该应用程序,可以对人类参考基因组的核苷酸频率,CpG岛,CpG非岛和CpG岛的海岸和架子(下游和上游)进行初步描述性数据分析,这将有助于生物学家从事人类表观基因组研究。最终用户可以查看并下载所有染色体的这些分析的表格视图。类似地,可以将各个比较图用于CpG位点比较。此外,为了介绍个人基因组计划,本研究对少量原始数据进行了初步工作,并将其包含在应用程序中,这将引起人们对个人基因组信息的兴趣。该应用程序托管在https://SAFA-HsG.shinyapps.io/home/上。它是一个多平台应用程序,可以从安装或未安装R的任何计算机本地启动。它是一个用户友好的界面,即使没有计算机知识的生物学家也可以使用它进行进一步的访问和分析。
更新日期:2019-11-01
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