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首页> 外文期刊>Computational Biology and Bioinformatics, IEEE/ACM Transactions on >RBioCloud: A Light-Weight Framework for Bioconductor and R-based Jobs on the Cloud
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RBioCloud: A Light-Weight Framework for Bioconductor and R-based Jobs on the Cloud

机译：RBioCloud：一种轻量级的框架，用于云上的生物导体和基于R的作业

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摘要

Large-scale ad hoc analytics of genomic data is popular using the R-programming language supported by over 700 software packages provided by Bioconductor. More recently, analytical jobs are benefitting from on-demand computing and storage, their scalability and their low maintenance cost, all of which are offered by the cloud. While biologists and bioinformaticists can take an analytical job and execute it on their personal workstations, it remains challenging to seamlessly execute the job on the cloud infrastructure without extensive knowledge of the cloud dashboard. How analytical jobs can not only with minimum effort be executed on the cloud, but also how both the resources and data required by the job can be managed is explored in this paper. An open-source light-weight framework for executing R-scripts using Bioconductor packages, referred to as ‘RBioCloud’, is designed and developed. RBioCloud offers a set of simple command-line tools for managing the cloud resources, the data and the execution of the job. Three biological test cases validate the feasibility of RBioCloud. The framework is available from .
机译：使用Bioconductor提供的700多种软件包支持的R编程语言，大规模进行基因组数据的即席分析很受欢迎。最近，分析工作受益于按需计算和存储，其可伸缩性和低维护成本，所有这些都由云提供。尽管生物学家和生物信息学家可以进行分析工作并在其个人工作站上执行，但是在没有广泛了解云仪表板知识的情况下，在云基础架构上无缝执行该工作仍然具有挑战性。本文探讨了如何不仅可以以最小的工作量在云上执行分析作业，而且还可以如何管理该作业所需的资源和数据。设计并开发了一个开源的轻量级框架，该框架使用Bioconductor程序包执行R脚本，称为“ RBioCloud”。 RBioCloud提供了一组简单的命令行工具，用于管理云资源，数据和作业执行。三个生物学测试案例验证了RBioCloud的可行性。该框架可从下载。

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