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WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data

PREMISE: The standardization of plant names is a critical step in various fields of biology, including biodiversity, biogeography, and vegetation research. The WorldFlora package is introduced here to help achieve this goal by matching lists of plant names with a static copy from World Flora Online...

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Autor principal: Kindt, Roeland
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7526431/
https://www.ncbi.nlm.nih.gov/pubmed/33014632
http://dx.doi.org/10.1002/aps3.11388
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author Kindt, Roeland
author_facet Kindt, Roeland
author_sort Kindt, Roeland
collection PubMed
description PREMISE: The standardization of plant names is a critical step in various fields of biology, including biodiversity, biogeography, and vegetation research. The WorldFlora package is introduced here to help achieve this goal by matching lists of plant names with a static copy from World Flora Online (WFO), an ongoing global effort to complete an online flora of all known vascular plants and bryophytes by 2020. METHODS AND RESULTS: Based on direct and fuzzy matching, WorldFlora inserts matching cases from the WFO to a submitted data set containing taxonomic names. The results and success rates for selecting the expected best single matches are presented for four data sets, including two data sets used in recent comparisons of software tools for correcting taxon names. CONCLUSIONS: WorldFlora offers a straightforward pipeline for semi‐automatic plant name checking. For the four data sets, the success rate of credible matches ranged from 94.7% to 99.9%.
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spelling pubmed-75264312020-10-02 WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data Kindt, Roeland Appl Plant Sci Software Notes PREMISE: The standardization of plant names is a critical step in various fields of biology, including biodiversity, biogeography, and vegetation research. The WorldFlora package is introduced here to help achieve this goal by matching lists of plant names with a static copy from World Flora Online (WFO), an ongoing global effort to complete an online flora of all known vascular plants and bryophytes by 2020. METHODS AND RESULTS: Based on direct and fuzzy matching, WorldFlora inserts matching cases from the WFO to a submitted data set containing taxonomic names. The results and success rates for selecting the expected best single matches are presented for four data sets, including two data sets used in recent comparisons of software tools for correcting taxon names. CONCLUSIONS: WorldFlora offers a straightforward pipeline for semi‐automatic plant name checking. For the four data sets, the success rate of credible matches ranged from 94.7% to 99.9%. John Wiley and Sons Inc. 2020-09-25 /pmc/articles/PMC7526431/ /pubmed/33014632 http://dx.doi.org/10.1002/aps3.11388 Text en © 2020 Kindt. Applications in Plant Sciences published by Wiley Periodicals LLC on behalf of Botanical Society of America This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Software Notes
Kindt, Roeland
WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title_full WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title_fullStr WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title_full_unstemmed WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title_short WorldFlora: An R package for exact and fuzzy matching of plant names against the World Flora Online taxonomic backbone data
title_sort worldflora: an r package for exact and fuzzy matching of plant names against the world flora online taxonomic backbone data
topic Software Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7526431/
https://www.ncbi.nlm.nih.gov/pubmed/33014632
http://dx.doi.org/10.1002/aps3.11388
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