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Reol: R interface to the Encyclopedia of Life

The Encyclopedia of Life is a website that hosts information about life on Earth. Its mission is to increase awareness and understanding of living nature through a freely accessible digital source. Information is publicly available through graphical webpages (browser interface) or through an applica...

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Detalles Bibliográficos
Autores principales: Banbury, Barbara L, O'Meara, Brian C
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Blackwell Publishing Ltd 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4203299/
https://www.ncbi.nlm.nih.gov/pubmed/25360287
http://dx.doi.org/10.1002/ece3.1109
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author Banbury, Barbara L
O'Meara, Brian C
author_facet Banbury, Barbara L
O'Meara, Brian C
author_sort Banbury, Barbara L
collection PubMed
description The Encyclopedia of Life is a website that hosts information about life on Earth. Its mission is to increase awareness and understanding of living nature through a freely accessible digital source. Information is publicly available through graphical webpages (browser interface) or through an application programming interface (API). We developed Reol, an open-source package for the R environment, which downloads data from the EOL API, searches for and extracts specific information, and builds tables with quantitative data and/or hierarchical classifications. We provide a detailed description how Reol can be used as a bridge between the R environment and the EOL API to extract quantitative or hierarchical content. It will be particularly useful for researchers who want information about taxonomic groups of interest (for example: how much information is known about flatworm species? What are the taxonomic synonyms for bird species?) or construct a taxonomic tree. Reol is a tool for researchers who wish to download and gather data from EOL or its provider pages. We provide numerous functions within R for downloading, gathering data in different forms, creating taxonomic trees, and plotting data, which work with functions already available through various packages. It joins a growing body of R packages that interact with web-based APIs to streamline data acquisition, thereby easing the analysis of large publicly available datasets.
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spelling pubmed-42032992014-10-30 Reol: R interface to the Encyclopedia of Life Banbury, Barbara L O'Meara, Brian C Ecol Evol Original Research The Encyclopedia of Life is a website that hosts information about life on Earth. Its mission is to increase awareness and understanding of living nature through a freely accessible digital source. Information is publicly available through graphical webpages (browser interface) or through an application programming interface (API). We developed Reol, an open-source package for the R environment, which downloads data from the EOL API, searches for and extracts specific information, and builds tables with quantitative data and/or hierarchical classifications. We provide a detailed description how Reol can be used as a bridge between the R environment and the EOL API to extract quantitative or hierarchical content. It will be particularly useful for researchers who want information about taxonomic groups of interest (for example: how much information is known about flatworm species? What are the taxonomic synonyms for bird species?) or construct a taxonomic tree. Reol is a tool for researchers who wish to download and gather data from EOL or its provider pages. We provide numerous functions within R for downloading, gathering data in different forms, creating taxonomic trees, and plotting data, which work with functions already available through various packages. It joins a growing body of R packages that interact with web-based APIs to streamline data acquisition, thereby easing the analysis of large publicly available datasets. Blackwell Publishing Ltd 2014-06 2014-05-26 /pmc/articles/PMC4203299/ /pubmed/25360287 http://dx.doi.org/10.1002/ece3.1109 Text en © 2014 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. http://creativecommons.org/licenses/by/3.0/ This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Research
Banbury, Barbara L
O'Meara, Brian C
Reol: R interface to the Encyclopedia of Life
title Reol: R interface to the Encyclopedia of Life
title_full Reol: R interface to the Encyclopedia of Life
title_fullStr Reol: R interface to the Encyclopedia of Life
title_full_unstemmed Reol: R interface to the Encyclopedia of Life
title_short Reol: R interface to the Encyclopedia of Life
title_sort reol: r interface to the encyclopedia of life
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4203299/
https://www.ncbi.nlm.nih.gov/pubmed/25360287
http://dx.doi.org/10.1002/ece3.1109
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