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vegdata (version 1.9.15)

Access Vegetation Databases and Treat Taxonomy

Description

Handling of vegetation data from different sources ( Turboveg 2.0 ; the German national repository and others. Taxonomic harmonization (given appropriate taxonomic lists, e.g. the Euro+Med list ).

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Version

Install

install.packages('vegdata')

Monthly Downloads

642

Version

1.9.15

License

GPL (>= 2)

Maintainer

Florian Jansen

Last Published

December 1st, 2025

Functions in vegdata (1.9.15)

tv.coverperc

Cover code translation
taxlevels

Taxonomic hierarchy levels
tv.home

Where is your Turboveg 2 installation path or the directory with Species, Data, and Popup you want to use?
tv.metadata

Show metainfo of vegetation database or ecodbase
taxname.simpl

Simplify name parts for better string matching
parent

#' Parents of a taxon
taxval

Handling of taxonomy in vegetation data.
vegdata

vegdata
tv.traits

Load species traits from Turboveg reference list
taxname.removeAuthors

Remove name authors from taxon names
tv.readXML

Reads a Turboveg XML file
tv.obs

Dataframe of plot-species observations directly from Turboveg
tv.bib

Check bibliographic references from Turboveg codes
taxname.abbr

Standardisation of taxonomic names, especially taxon rank indicators and hybrid signs name taxname.abbr
tv.site

Load site data from Turboveg Database
tv.db

Read list of available Turboveg2 databases in given Turboveg directory
tv.write

Write species-plot observations and site information to Turboveg database.
vegdata-package

Functions to access data from vegetation databases and evaluate taxon names
tv.veg

Tabulates vegetation tables from Turboveg database
child

Search taxonomic reference lists including concept synonomy and taxonomic hierarchy.
comb.species

Combine species in vegetation matrix
lc.1

Layer combinations
TV.replace

Rename data.frame columns to match Turboveg 2 conventions
TCS.replace

Standardise taxon list field names to match the Taxonomic Concept Transfer Schema (TCS)
db_path

database path
cwm

Indicate site conditions with community weighted mean values of traits or with mode of gradient classes (sum of species amplitudes).
tax

Search taxonomic reference lists including concept synonomy and taxonomic hierarchy.
db_download

Download taxonomic databases
sql_collect

Query and get data back into a data.frame
src_vegdata

src - dplyr src objects
lc.all

Layer combinations
lc.0

Layer combinations
elbaue

This is an example vegetation dataset to be included in package vegdata. Use tv.veg('elbaue') and tv.site('elbaue') to load.
tax.refl

Taxon reference list to be used
syn

Search synonyms of a taxon
parse.taxa

Parse taxon strings into genus part and epitheta
syntab

Syntaxonomic frequency tables
recoding.taxa

Recode taxon names, lettercodes or ID's