Chapter 1 taxize manual

An R package for taxonomic information from around the web.

taxize interacts with a suite of web APIs for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more.

1.2 Citing taxize

Scott Chamberlain and Eduard Szocs (2013). taxize - taxonomic search and retrieval in R. F1000Research, 2:191. URL: http://f1000research.com/articles/2-191/v2.

Scott Chamberlain, Eduard Szoecs, Zachary Foster, Zebulun Arendsee, Carl Boettiger, Karthik Ram, Ignasi Bartomeus, John Baumgartner, James O’Donnell, Jari Oksanen, Bastian Greshake Tzovaras, Philippe Marchand, Vinh Tran, Maëlle Salmon, and Gaopeng Li. (2019) taxize: Taxonomic information from around the web. R package version 0.9.5. https://github.com/ropensci/taxize

1.3 Installation

Stable version from CRAN

install.packages("taxize")

Development version from GitHub

devtools::install_github("ropensci/taxize")

Load library

library('taxize')