Classes for Storing and Manipulating Taxonomic Data

Provides classes for storing and manipulating taxonomic data. Most of the classes can be treated like base R vectors (e.g. can be used in tables as columns and can be named). Vectorized classes can store taxon names and authorities, taxon IDs from databases, taxon ranks, and other types of information. More complex classes are provided to store taxonomic trees and user-defined data associated with them.

taxa

This is an R package that provides classes to store and manipulate taxonomic data. Most of the classes can be used like base R vectors. This project is a partial rewrite of the previous version of taxa and is currently under development.

A note about recent changes:

This is beginning of a complete rewrite of the previous taxa package to make the more basic component classes more like base R vectors. The taxmap class is not yet reimplemented, but will be similar to the class in the previous versions of taxa. The old version of taxa has been incorporated into the metacoder package until this version of taxa is mature, at which time metacoder will also use this version.

Contributors

• Zachary Foster
• Scott Chamberlain

Comments and contributions

We welcome comments, criticisms, and especially contributions! GitHub issues are the preferred way to report bugs, ask questions, or request new features. You can submit issues here:

https://github.com/ropensci/taxa/issues

Meta

• Please report any issues or bugs.
• License: MIT
• Get citation information for taxa in R doing citation(package = 'taxa')
• Please note that this project is released with a Contributor Code of Conduct (see CONDUCT.md). By participating in this project you agree to abide by its terms.