taxize: taxonomic search and retrieval in R.
taxize: taxonomic search and retrieval in R.
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DOI：
10.12688/f1000research.2-191.v2
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发表时间：
2013
期刊：
影响因子：
--
通讯作者：
Szöcs E
中科院分区：
文献类型：
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作者：
Chamberlain SA;Szöcs E
所有物种都在层次上相互关联，我们使用分类学名称来标记该层次中的节点。分类数据在网络上变得越来越容易获得，但科学家们需要一种以一种容易和可重复的编程方式访问这些数据的方式。我们已经开发了Taxize，这是一个开源软件包(可从http://cran.r-project.org/web/packages/taxize/index.html)免费获得)，用于R语言。Taxize为Web上的13个数据源提供了对分类数据的简单编程访问。我们讨论了R中对分类工具带的需求，并概述了一套非常适合Taxize的用例(包括作为附录的完整工作流)。Taxize包通过允许在开源R平台中完成分类数据收集，促进了开放和可重现的科学。
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.