R: Access Vegetation Databases and Treat Taxonomy

# Access Vegetation Databases and Treat Taxonomy

## Documentation for package ‘vegdata’ version 1.9.18

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

vegdata-package | Functions to access data from vegetation databases and evaluate taxon names
child | Search taxonomic reference lists including concept synonomy and taxonomic hierarchy.
comb.species | Combine species in vegetation matrix
cwm | Indicate site conditions with community weighted mean values of traits or with mode of gradient classes (sum of species amplitudes).
db_download | Download taxonomic databases
db_path | database path
elbaue | This is an example vegetation dataset to be included in package vegdata. Use tv.veg('elbaue') and tv.site('elbaue') to load.
lc.0 | Layer combinations
lc.1 | Layer combinations
lc.all | Layer combinations
parent | #' Parents of a taxon
parse.taxa | Parse taxon strings into genus part and epitheta
print.syntab | Syntaxonomic frequency tables
recoding.taxa | Recode taxon names, lettercodes or ID's
syn | Search synonyms of a taxon
syntab | Syntaxonomic frequency tables
tax | Search taxonomic reference lists including concept synonomy and taxonomic hierarchy.
tax.refl | Taxon reference list to be used
taxlevels | Taxonomic hierarchy levels
taxname.abbr | Standardisation of taxonomic names, especially taxon rank indicators and hybrid signs name taxname.abbr
taxname.authors | Remove name authors from taxon names
taxname.removeAuthors | Remove name authors from taxon names
taxname.simpl | Simplify name parts for better string matching
taxname.simplify | Simplify name parts for better string matching
taxref_download | Download taxonomic databases
taxref_download_eurosl | Download taxonomic databases
taxref_download_germansl | Download taxonomic databases
taxval | Handling of taxonomy in vegetation data.
TCS.replace | Standardise taxon list field names to match the Taxonomic Concept Transfer Schema (TCS)
tv.bib | Check bibliographic references from Turboveg codes
tv.coverperc | Cover code translation
tv.db | Read list of available Turboveg2 databases in given Turboveg directory
tv.dict | Read list of available Turboveg2 databases in given Turboveg directory
tv.eco | Load species traits from Turboveg reference list
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
tv.obs | Dataframe of plot-species observations directly from Turboveg
tv.readXML | Reads a Turboveg XML file
TV.replace | Rename data.frame columns to match Turboveg 2 conventions
tv.site | Load site data from Turboveg Database
tv.traits | Load species traits from Turboveg reference list
tv.veg | Tabulates vegetation tables from Turboveg database
tv.write | Write species-plot observations and site information to Turboveg database.
vegdata | vegdata