R: Classes for Storing and Manipulating Taxonomic Data

# Classes for Storing and Manipulating Taxonomic Data

## Documentation for package ‘taxa’ version 0.4.4

- DESCRIPTION file
- Package NEWS
- Package README

## Help Pages

A C D I L N R S T misc

## -- A --

as_data_frame | Convert a taxa object to a 'data.frame'
as_taxon | Convert to a taxon vector

## -- C --

classification | Taxon class

## -- D --

db_ref | Valid taxonomy databases

## -- I --

internodes | Get internodes
is_classification | Check if is a classification
is_internode | Check if taxa are internodes
is_leaf | Check if taxa are leaves
is_root | Test if taxa are roots
is_stem | Check if taxa are stems
is_taxon | Check if something is a taxon object
is_taxonomy | Check if something is a taxonomy
is_taxon_authority | Check if is a taxon_authority
is_taxon_db | Check if something is a taxon_db
is_taxon_id | Check if something is a taxon_id object
is_taxon_rank | Check if something is a taxon_rank

## -- L --

leaves | Get leaves

## -- N --

n_leaves | Number of leaves per taxon
n_subtaxa | Number of subtaxa per taxon
n_supertaxa | Number of supertaxa per taxon

## -- R --

roots | Get root taxa

## -- S --

stems | Get stems
subtaxa | Get subtaxa
supertaxa | Get supertaxa

## -- T --

taxa_taxon | Taxon class
taxa_taxon-class | Taxon class
taxa_taxonomy | Taxonomy class
taxa_taxonomy-class | Taxonomy class
taxa_taxon_authority | Taxon authority class
taxa_taxon_authority-class | Taxon authority class
taxa_taxon_db | Taxon database class
taxa_taxon_db-class | Taxon database class
taxa_taxon_id | Taxon ID class
taxa_taxon_id-class | Taxon ID class
taxa_taxon_rank | Taxon rank class
taxa_taxon_rank-class | Taxon rank class
taxon | Taxon class
taxon_authority | Taxon authority class
taxon_db | Taxon database class
taxon_id | Taxon ID class
taxon_rank | Taxon rank class
tax_auth | Set and get taxon authorities
tax_auth.taxa_classification | Set and get taxon authorities
tax_auth.taxa_taxon | Set and get taxon authorities
tax_auth.taxa_taxonomy | Set and get taxon authorities
tax_auth<- | Set and get taxon authorities
tax_auth<-.taxa_classification | Set and get taxon authorities
tax_auth<-.taxa_taxon | Set and get taxon authorities
tax_auth<-.taxa_taxonomy | Set and get taxon authorities
tax_author | Set and get taxon authors
tax_author.taxa_classification | Set and get taxon authors
tax_author.taxa_taxon | Set and get taxon authors
tax_author.taxa_taxonomy | Set and get taxon authors
tax_author.taxa_taxon_authority | Set and get taxon authors
tax_author<- | Set and get taxon authors
tax_author<-.taxa_classification | Set and get taxon authors
tax_author<-.taxa_taxon | Set and get taxon authors
tax_author<-.taxa_taxonomy | Set and get taxon authors
tax_author<-.taxa_taxon_authority | Set and get taxon authors
tax_cite | Set and get taxon authority citations
tax_cite.taxa_classification | Set and get taxon authority citations
tax_cite.taxa_taxon | Set and get taxon authority citations
tax_cite.taxa_taxonomy | Set and get taxon authority citations
tax_cite.taxa_taxon_authority | Set and get taxon authority citations
tax_cite<- | Set and get taxon authority citations
tax_cite<-.taxa_classification | Set and get taxon authority citations
tax_cite<-.taxa_taxon | Set and get taxon authority citations
tax_cite<-.taxa_taxonomy | Set and get taxon authority citations
tax_cite<-.taxa_taxon_authority | Set and get taxon authority citations
tax_date | Set and get taxon authority dates
tax_date.taxa_classification | Set and get taxon authority dates
tax_date.taxa_taxon | Set and get taxon authority dates
tax_date.taxa_taxonomy | Set and get taxon authority dates
tax_date.taxa_taxon_authority | Set and get taxon authority dates
tax_date<- | Set and get taxon authority dates
tax_date<-.taxa_classification | Set and get taxon authority dates
tax_date<-.taxa_taxon | Set and get taxon authority dates
tax_date<-.taxa_taxonomy | Set and get taxon authority dates
tax_date<-.taxa_taxon_authority | Set and get taxon authority dates
tax_db | Set and get taxon ID databases
tax_db.taxa_classification | Set and get taxon ID databases
tax_db.taxa_taxon | Set and get taxon ID databases
tax_db.taxa_taxonomy | Set and get taxon ID databases
tax_db.taxa_taxon_id | Set and get taxon ID databases
tax_db<- | Set and get taxon ID databases
tax_db<-.taxa_classification | Set and get taxon ID databases
tax_db<-.taxa_taxon | Set and get taxon ID databases
tax_db<-.taxa_taxonomy | Set and get taxon ID databases
tax_db<-.taxa_taxon_id | Set and get taxon ID databases
tax_id | Set and get taxon IDs
tax_id.taxa_classification | Set and get taxon IDs
tax_id.taxa_taxon | Set and get taxon IDs
tax_id.taxa_taxonomy | Set and get taxon IDs
tax_id<- | Set and get taxon IDs
tax_id<-.taxa_classification | Set and get taxon IDs
tax_id<-.taxa_taxon | Set and get taxon IDs
tax_id<-.taxa_taxonomy | Set and get taxon IDs
tax_name | Set and get taxon names
tax_name.taxa_classification | Set and get taxon names
tax_name.taxa_taxon | Set and get taxon names
tax_name.taxa_taxonomy | Set and get taxon names
tax_name<- | Set and get taxon names
tax_name<-.taxa_classification | Set and get taxon names
tax_name<-.taxa_taxon | Set and get taxon names
tax_name<-.taxa_taxonomy | Set and get taxon names
tax_rank | Set and get taxon ranks
tax_rank.taxa_classification | Set and get taxon ranks
tax_rank.taxa_taxon | Set and get taxon ranks
tax_rank.taxa_taxonomy | Set and get taxon ranks
tax_rank<- | Set and get taxon ranks
tax_rank<-.taxa_classification | Set and get taxon ranks
tax_rank<-.taxa_taxon | Set and get taxon ranks
tax_rank<-.taxa_taxonomy | Set and get taxon ranks

## -- misc --

%in% | Value matching for taxa package