used_synonyms: Retrieve synonyms or taxon concepts used in a data set

In vegtable: Handling Vegetation Data Sets

Retrieve synonyms or taxon concepts used in a data set

Description

Plots records are rather linked to plant names than plant taxon concepts and used_synonyms() lists all synonyms linked to records in a vegtable object, including their respective accepted names.

On the other side, the function used_concepts() produces a subset of the taxonomic list embeded in the slot species including only taxonomic concepts linked to records in the slot samples.

Usage

used_synonyms(x, ...)

## S3 method for class 'vegtable'
used_synonyms(x, ...)

used_concepts(x, ...)

## S3 method for class 'vegtable'
used_concepts(x, keep_children = FALSE, keep_parents = FALSE, ...)

Arguments

x	A vegtable object.
...	Further arguments to be passed from or to another methods.
keep_children	A logical argument indicating whether children of selected taxa should be included in the output or not. This argument passed to get_children().
keep_parents	A logical argument indicating whether parents of selected taxa should be included in the output or not. This argument passed to get_parents().

Value

The function used_synonyms() returns a data frame including following variables:

SynonymID

ID of the taxon usage name applied as synonym.

Synonym

The synonym itself.

SynonymAuthor

Author of synonym.

TaxonConceptID

ID of the respective taxon concept.

AcceptedNameID

ID of the taxon usage name set as accepted name of the taxon concept.

AcceptedName

The respective accepted name.

AcceptedNameAuthor

The author of the accepted name.

The function used_concepts() returns a taxlist object including only taxa occurring in the plot observations of the input vegtable object.

Author(s)

Miguel Alvarez [e-mail]

See Also

accepted_name()

Examples

## Synonyms used in the Kenya_veg
Synonyms <- used_synonyms(Kenya_veg)
head(Synonyms)

## Subset species list to used concepts
species <- used_concepts(Kenya_veg)
Kenya_veg@species
species

vegtable documentation built on March 31, 2023, 10:33 p.m.