tax: Query of taxonomic reference list including concept synonomy and taxonomic hierarchy.

Description

Input is either species number (integer), shortletter (7 characters) or full (exact!) species name.

Usage

tax(x, refl, verbose = FALSE, syn = TRUE, concept = NULL, strict = FALSE, ...)
childs(x, refl, species, gen = 4, tree = FALSE, quiet = FALSE, ...)
parents(x, refl, species, rank, ...)
syn(x, refl, species, quiet = FALSE, ...)

Arguments

Species number, lettercode or species name

refl

Taxonomic reference list

verbose

Load tax.dbf with additional taxonomic information (e.g. Secundum) instead of species.dbf

syn

Return also matching synonyms.

concept

Name of alternatice taxon view file within the reference list directory.

strict

Exact match or partial matching with grep

species

Taxonomic reference list (dataframe according to tax() output. If not given, tax(...) will be used.

gen

Number of child generations to return, defaults to all.

quiet

Hide screen messages.

tree

Opens a gWidgets window with interactive taxonomic tree view. Requires package gWidgets.

rank

Taxonomical level of parentship to find.

...

additional attributes

Details

concept: GermanSL is a list with a single taxon view according to the standard lists of the different taxon groups (e.g Wisskirchen and Haeupler for higher plants, see). Nevertheless a hugh number of synonyms is included which allows in many cases the transformation into different concepts. For illustration the concept of Armeria maritima from Korneck 1996 is included, which accepts e.g. Armeria maritima ssp. bottendorfensis.

References

Jansen, F. and Dengler, J. (2008) GermanSL - eine universelle taxonomische Referenzliste f"ur Vegetationsdatenbanken. Tuexenia, 28, 239-253.

Examples

Run this code

## GermanSL in Turboveg installation path needed
tax(27)
tax('Achillea millefolium')
tax('ACHIMILL')
childs(0, gen=1)
childs(94419, tree=TRUE)