The ZOON R package for reproducible and shareable species distribution modelling
The ZOON R package for reproducible and shareable species distribution modelling
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DOI：
10.1111/2041-210x.12858
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发表时间：
2018-02-01
影响因子：
6.6
通讯作者：
McInerny, Greg
中科院分区：
文献类型：
--
作者：
Golding, Nick;August, Tom A.;McInerny, Greg
1. 物种分布模型（SDM）作为一门生态学科的快速发展催生了用于构建和评估 SDM 的大量多样的方法和软件。当前SDM研究环境的脱节性阻碍了新方法的评估、现有知识的综合以及新方法向SDM用户的传播。2． ZOON R 包旨在通过提供用于构建可重复的 SDM 工作流程的模块化框架来克服这些问题。 zoon 模块是可互操作的 r 代码片段，每个模块都携带一个 SDM 方法，zoon 将其组合成单个分析对象。 3． ZOON 不是定义这些模块，而是从开放的、版本控制的在线存储库中提取模块。 ZOON 使 SDM 研究人员可以轻松地向该存储库贡献模块，从而使其他人能够在自己的工作流程中快速部署新方法或比较替代方法。4。 ZOON 创建的每个工作流对象都是整个 SDM 分析的数据、代码和结果的可重新运行记录。然后，整个 SDM 研究社区就可以轻松共享、审查、复制和扩展该结果。5。我们解释了 ZOON 的工作原理，并演示了如何使用它来构建完全可重复的 SDM 分析、创建和共享新模块以及执行方法比较研究。
1. The rapid growth of species distribution modelling (SDM) as an ecological discipline has resulted in a large and diverse set of methods and software for constructing and evaluating SDMs. The disjointed nature of the current SDM research environment hinders evaluation of new methods, synthesis of current knowledge and the dissemination of new methods to SDM users.2. The ZOON R package aims to overcome these problems by providing a modular framework for constructing reproducible SDM workflows. zoon modules are interoperable snippets of r code, each carrying a SDM method that zoon combines into a single analysis object.3. Rather than defining these modules, ZOON draws modules from an open, version-controlled online repository. ZOON makes it easy for SDM researchers to contribute modules to this repository, enabling others to rapidly deploy new methods in their own workflows or to compare alternative methods.4. Each workflow object created by ZOON is a rerunnable record of the data, code and results of an entire SDM analysis. This can then be easily shared, scrutinised, reproduced and extended by the whole SDM research community.5. We explain how ZOON works and demonstrate how it can be used to construct a completely reproducible SDM analyses, create and share a new module, and perform a methodological comparison study.