Automated assembly of a reference taxonomy for phylogenetic data synthesis
Taxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa. Open Tree of Life is one such project, synthesizing sets of published phylogenetic trees into comprehensive summary trees. No single pu...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
| Published: |
Pensoft Publishers
2017-05-01
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| Series: | Biodiversity Data Journal |
| Online Access: | http://bdj.pensoft.net/articles.php?id=12581 |
| _version_ | 1811275457088192512 |
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| author | Jonathan Rees Karen Cranston |
| author_facet | Jonathan Rees Karen Cranston |
| author_sort | Jonathan Rees |
| collection | DOAJ |
| description | Taxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa. Open Tree of Life is one such project, synthesizing sets of published phylogenetic trees into comprehensive summary trees. No single published taxonomy met the taxonomic and nomenclatural needs of the project. Here we describe a system for reproducibly combining several source taxonomies into a synthetic taxonomy, and we discuss the challenges of taxonomic and nomenclatural synthesis for downstream biodiversity projects. |
| first_indexed | 2024-04-12T23:38:09Z |
| format | Article |
| id | doaj.art-60949926b0b343a2b4a5dda084b676bd |
| institution | Directory Open Access Journal |
| issn | 1314-2836 1314-2828 |
| language | English |
| last_indexed | 2024-04-12T23:38:09Z |
| publishDate | 2017-05-01 |
| publisher | Pensoft Publishers |
| record_format | Article |
| series | Biodiversity Data Journal |
| spelling | doaj.art-60949926b0b343a2b4a5dda084b676bd2022-12-22T03:12:04ZengPensoft PublishersBiodiversity Data Journal1314-28361314-28282017-05-01513210.3897/BDJ.5.e1258112581Automated assembly of a reference taxonomy for phylogenetic data synthesisJonathan Rees0Karen CranstonDuke UniversityTaxonomy and nomenclature data are critical for any project that synthesizes biodiversity data, as most biodiversity data sets use taxonomic names to identify taxa. Open Tree of Life is one such project, synthesizing sets of published phylogenetic trees into comprehensive summary trees. No single published taxonomy met the taxonomic and nomenclatural needs of the project. Here we describe a system for reproducibly combining several source taxonomies into a synthetic taxonomy, and we discuss the challenges of taxonomic and nomenclatural synthesis for downstream biodiversity projects.http://bdj.pensoft.net/articles.php?id=12581 |
| spellingShingle | Jonathan Rees Karen Cranston Automated assembly of a reference taxonomy for phylogenetic data synthesis Biodiversity Data Journal |
| title | Automated assembly of a reference taxonomy for phylogenetic data synthesis |
| title_full | Automated assembly of a reference taxonomy for phylogenetic data synthesis |
| title_fullStr | Automated assembly of a reference taxonomy for phylogenetic data synthesis |
| title_full_unstemmed | Automated assembly of a reference taxonomy for phylogenetic data synthesis |
| title_short | Automated assembly of a reference taxonomy for phylogenetic data synthesis |
| title_sort | automated assembly of a reference taxonomy for phylogenetic data synthesis |
| url | http://bdj.pensoft.net/articles.php?id=12581 |
| work_keys_str_mv | AT jonathanrees automatedassemblyofareferencetaxonomyforphylogeneticdatasynthesis AT karencranston automatedassemblyofareferencetaxonomyforphylogeneticdatasynthesis |