Biodiversity Information Science and Standards : Conference Abstract
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Conference Abstract
TaxonWorks: An experience of migrating large datasets into the new cybertaxonomic infrastructure
expand article info Dmitry A Dmitriev ‡
‡ University of Illinois at Urbana-Champaign, Champaign, United States of America
Corresponding author: Dmitry A Dmitriev (arboridia@gmail.com)
Received: 11 Jun 2019 | Published: 18 Jun 2019
© 2019 Dmitry Dmitriev
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.
Citation: Dmitriev D (2019) TaxonWorks: An experience of migrating large datasets into the new cybertaxonomic infrastructure. Biodiversity Information Science and Standards 3: e37159. https://doi.org/10.3897/biss.3.37159
Open Access

Abstract

TaxonWorks (http://taxonworks.org) in an integrated, open-source, cybertaxonomic web application serving taxonomists and biodiversity scientists. It is designed to facilitate efficient data capture, storage, manipulation, and retrieval. It integrates a wide variety of data types used by biodiversity scientists, including, but not limited to, taxonomy (with validation based on codes of zoological, botanical, bacterial, and viral nomenclature), specimen data, bibliographies, media (images, PDFs, sounds, videos), morphology (character/trait matrices), distribution, biological associations. Available TaxonWorks web interfaces currently provide various data entry forms for simple and advanced querying of the database.

TaxonWorks has integrated batch uploader functionality. But, for larger datasets, specialized migration scripts were used. Several projects, historically build in 3i (http://dmitriev.speciesfile.org), MX (http://mx.phenomix.org), SpeciesFiles (http://software.speciesfile.org), and other databases, have been or are being migrated into TaxonWorks. Of the projects moving into TaxonWorks, it is worth mentioning several: 3i World Auchenorrhyncha Database, LepIndex, Universal Chalcidoidea Database, Orthoptera SpeciesFile, Plecoptera SpeciesFile, Illinois Natural History Survey Insect Collection database, and several others. An experience of the data migration will be shared during the presentation.

Keywords

TaxonWorks, taxonomy, cybertaxonomy, nomenclature, bioinformatics, database, dataset

Presenting author

Dmitry A. Dmitriev

Presented at

Biodiversity_Next 2019

Funding program

The work is supported by NSF DEB 16-39601 grant.

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