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Ecological interactions in the Scratchpads virtual research environment

Abstract. BACKGROUND: The Natural History Museum, London has a number of online databases that describe interactions between species, including the HOSTS database of lepidopteran host plants (Robinson et al. 2010) and a database of Dipterocarp Seed Predators. These databases were generally bespoke s...

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Autores principales: Baker, Edward, Dupont, Steen, Smith, Vincent Stuart
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Pensoft Publishers 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6892960/
https://www.ncbi.nlm.nih.gov/pubmed/31824210
http://dx.doi.org/10.3897/BDJ.7.e47043
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author Baker, Edward
Dupont, Steen
Smith, Vincent Stuart
author_facet Baker, Edward
Dupont, Steen
Smith, Vincent Stuart
author_sort Baker, Edward
collection PubMed
description Abstract. BACKGROUND: The Natural History Museum, London has a number of online databases that describe interactions between species, including the HOSTS database of lepidopteran host plants (Robinson et al. 2010) and a database of Dipterocarp Seed Predators. These databases were generally bespoke software, which has increased the technical work necessary to sustain these resources. The decision was taken to migrate these to either the Scratchpads Virtual Research Environment (VRE) (Smith et al. 2011) or to the museum's Data Portal (Scott et al. 2019), depending on the complexity of the existing resource, as both are being sustained by the Informatics Group at the Natural History Museum, London. Resources that can be best represented as a single table were moved to the Data Portal, while those best represented in a relational model were transferred to Scratchpads. In addition, the Phthiraptera.info Scratchpad (Smith and Broom 2019), which already contained ecological interaction data, was migrated to the new system. NEW INFORMATION: This paper describes the implementation within the Scratchpads VRE of a new ecological interactions module that is capable of handling the needs of these projects, while at the same time is flexible to handle the needs of future projects with different data sources.
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spelling pubmed-68929602019-12-10 Ecological interactions in the Scratchpads virtual research environment Baker, Edward Dupont, Steen Smith, Vincent Stuart Biodivers Data J Software Description Abstract. BACKGROUND: The Natural History Museum, London has a number of online databases that describe interactions between species, including the HOSTS database of lepidopteran host plants (Robinson et al. 2010) and a database of Dipterocarp Seed Predators. These databases were generally bespoke software, which has increased the technical work necessary to sustain these resources. The decision was taken to migrate these to either the Scratchpads Virtual Research Environment (VRE) (Smith et al. 2011) or to the museum's Data Portal (Scott et al. 2019), depending on the complexity of the existing resource, as both are being sustained by the Informatics Group at the Natural History Museum, London. Resources that can be best represented as a single table were moved to the Data Portal, while those best represented in a relational model were transferred to Scratchpads. In addition, the Phthiraptera.info Scratchpad (Smith and Broom 2019), which already contained ecological interaction data, was migrated to the new system. NEW INFORMATION: This paper describes the implementation within the Scratchpads VRE of a new ecological interactions module that is capable of handling the needs of these projects, while at the same time is flexible to handle the needs of future projects with different data sources. Pensoft Publishers 2019-11-27 /pmc/articles/PMC6892960/ /pubmed/31824210 http://dx.doi.org/10.3897/BDJ.7.e47043 Text en Edward Baker, Steen Dupont, Vincent Stuart Smith http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Software Description
Baker, Edward
Dupont, Steen
Smith, Vincent Stuart
Ecological interactions in the Scratchpads virtual research environment
title Ecological interactions in the Scratchpads virtual research environment
title_full Ecological interactions in the Scratchpads virtual research environment
title_fullStr Ecological interactions in the Scratchpads virtual research environment
title_full_unstemmed Ecological interactions in the Scratchpads virtual research environment
title_short Ecological interactions in the Scratchpads virtual research environment
title_sort ecological interactions in the scratchpads virtual research environment
topic Software Description
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6892960/
https://www.ncbi.nlm.nih.gov/pubmed/31824210
http://dx.doi.org/10.3897/BDJ.7.e47043
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