taxize: taxonomic search and retrieval in R.
taxize: taxonomic search and retrieval in R.
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DOI：
10.12688/f1000research.2-191.v1
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发表时间：
2013-01-01
期刊：
影响因子：
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通讯作者：
Szocs, Eduard
中科院分区：
文献类型：
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作者：
Chamberlain, Scott A;Szocs, Eduard
所有的物种都有等级关系，我们使用分类学名称来标记这个等级中的节点。分类学数据在网络上变得越来越可用，但科学家需要一种简单且可重复的编程方式来访问它。我们已经开发了taxize，一个R语言的开源软件包（可从http：//cran.r-project.org/web/packages/taxize/index.html免费获得）。taxize提供了对Web上13个数据源的分类数据的简单的、可编程的访问。我们讨论了R中分类工具带的需求，并概述了一套非常适合分类的用例（包括完整的工作流程作为附录）。taxize包通过允许在开源R平台中完成分类数据收集来促进开放和可重复的科学。
All species are hierarchically related to one another, and we use taxonomic names to label the nodes in this hierarchy. Taxonomic data is becoming increasingly available on the web, but scientists need a way to access it in a programmatic fashion that's easy and reproducible. We have developed taxize, an open-source software package (freely available from http://cran.r-project.org/web/packages/taxize/index.html) for the R language. taxize provides simple, programmatic access to taxonomic data for 13 data sources around the web. We discuss the need for a taxonomic toolbelt in R, and outline a suite of use cases for which taxize is ideally suited (including a full workflow as an appendix). The taxize package facilitates open and reproducible science by allowing taxonomic data collection to be done in the open-source R platform.