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虚拟参考环境:使研究具有可重复性的一种简单方法。

Virtual Reference Environments: a simple way to make research reproducible.

作者信息

Hurley Daniel G, Budden David M, Crampin Edmund J

出版信息

Brief Bioinform. 2015 Sep;16(5):901-3. doi: 10.1093/bib/bbu043. Epub 2014 Nov 28.

Abstract

'Reproducible research' has received increasing attention over the past few years as bioinformatics and computational biology methodologies become more complex. Although reproducible research is progressing in several valuable ways, we suggest that recent increases in internet bandwidth and disk space, along with the availability of open-source and free-software licences for tools, enable another simple step to make research reproducible. In this article, we urge the creation of minimal virtual reference environments implementing all the tools necessary to reproduce a result, as a standard part of publication. We address potential problems with this approach, and show an example environment from our own work.

摘要

在过去几年中,随着生物信息学和计算生物学方法变得越来越复杂,“可重复性研究”受到了越来越多的关注。尽管可重复性研究在几个有价值的方面取得了进展,但我们认为,最近互联网带宽和磁盘空间的增加,以及工具的开源和免费软件许可的可用性,使得采取另一个简单步骤就能使研究具有可重复性。在本文中,我们敦促创建最小化的虚拟参考环境,将重现结果所需的所有工具作为出版物的标准组成部分。我们讨论了这种方法可能存在的问题,并展示了我们自己工作中的一个示例环境。

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