The taxlist package: managing plant taxonomic lists in R

Abstract Taxonomic lists are crucial elements of vegetation-plot databases and provide the links between original entries, reference taxon views and different taxon concepts. We introduce the R package taxlist in the context of object-oriented modelling for taxonomic lists. This package provides a data structure based on species lists in Turboveg, which is a software broadly used for the storage of vegetation-plot databases and implements functions for importing and handling them prior to statistical analysis. We also present a schema for relational databases, compatible with taxlist objects and recommend its use for handling diversity records.

• Publication year

  2018

• Venue

  Biodiversity Data Journal

• Publication date

  2018-02-05

• Fields of study

  Biology, Medicine, Computer Science, Environmental Science

• Identifiers
  DOI 10.3897/BDJ.6.e23635PMID 29750074PMCID 5943443
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Palaeobiology: Ensure equal access to ancient DNA

  2017cited by this paper
• R: A language and environment for statistical computing.

  2014cited by this paper
• taxize: taxonomic search and retrieval in R

  2013cited by this paper
• International Code of Nomenclature for algae, fungi, and plants (Melbourne Code)

  2012cited by this paper
• Darwin Core: An Evolving Community-Developed Biodiversity Data Standard

  2012cited by this paper
• taxonstand: An r package for species names standardisation in vegetation databases

  2012influential reference
• The Global Index of Vegetation-Plot Databases (GIVD): a new resource for vegetation science

  2011cited by this paper
• Veg‐X – an exchange standard for plot‐based vegetation data

  2011cited by this paper
• Plant names in vegetation databases – a neglected source of bias

  2010influential reference
• Vegetation-plot data and databases in Europe: an overview

  2008cited by this paper
• The New Bioinformatics: Integrating Ecological Data from the Gene to the Biosphere

  2006cited by this paper
• TURBOVEG, a comprehensive data base management system for vegetation data

  2001influential reference
• International Code of Phytosociological Nomenclature. 3rd edition

  2000cited by this paper
• A taxonomic information model for botanical databases: the IOPI Model

  1997cited by this paper
• Data model and comparison and query methods for interacting classifications in a taxonomic database

  1996influential reference
• The concept of "potential taxa" in databases

  1995cited by this paper

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