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taxize: taxonomic search and retrieval in R
Open accessAbstract
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.
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Metadata
- Authors
- Chamberlain, S. A., & Szöcs, E.
- Venue
- F1000Research
- Publisher
- F1000 Research Ltd
- Published
- 2013-09-18
- Volume
- 2
- Pages
- 191
- ISSN
- 2046-1402 (ISSN-L)
- OpenAlex
- W2162520906
- Cited by
- 542
- References
- 1
- FWCI
- 38.01
- Type
- journal article
- Language
- en
- Update notices
- new_version (2013-10-28)
- Open access
- gold
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Bibliographic data: Semantic Scholar, OpenAlex, Crossref.
Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
