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| − | In the following we list (in alphabetical order) large scale aggregators of taxonomic information that either provide name matching services themselves or are indirectly accessible for name checking by means of one of the repository services.
| + | The content of this page has been moved and split into a page listing [[Taxonomic datasets]] and a list of [[Name matching services]]. |
| − | | |
| − | (Testing and documentation in progress)
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| − | == Terminology ==
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| − | See [[What is name matching?]] for general discussion on terminology and intent<br />.
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| − | The following results from the TNLS (Taxonomic Name Linking Services) 3PP (TETTRIs third party project) provide an important overview:<br/> | |
| − | [https://docs.google.com/spreadsheets/d/1QKvytrNa8TxYY63cfxzttd9tSUAN-xeF8TY3vG-J5gs/edit?gid=0#gid=0 Overview of input parameters of aggregator services]<br />
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| − | [https://docs.google.com/spreadsheets/d/1QKvytrNa8TxYY63cfxzttd9tSUAN-xeF8TY3vG-J5gs/edit?gid=223152038#gid=223152038 Overview of output fields of aggregator services]
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| − | ==[https://www.algaebase.org Algaebase]==
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| − | '''Taxonomic scope:''' Algae<br />
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| − | '''Geographic scope:''' global<br />
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| − | Currently no name matching, outdated copies included in Global Names and ChecklistBank, recent version in WoRMS.<br />
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| − | A simple taxon match implementation is planned via [https://www.algaebase.org/api/ AlgaeBase API] in the framework of [https://www.lifewatch.be Lifewatch - Thematic Service Taxonomy]<br />
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| − | ==[https://www.anbg.gov.au/apni/ Australian Plant Name Index]==
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| − | '''Taxonomic scope:''' Plants<br />
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| − | '''Geographic scope:''' Australia<br />
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| − | Software updated: ?<br />
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| − | Codebase/Documentation: ?<br />
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| − | Data updated: ?<br />
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| − | '''Limitation:''' not stated, check with nearly 21,000 names ended in server error [23 may 2024]<br />
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| − | '''Local ID input returned:''' No<br />
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| − | Local Name input returned: <br />
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| − | Aggregator name ID returned: <br />
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| − | '''Interactive mode for partial matches:''' No <br />
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| − | '''OpenRefine reconciliation API:''' No<br />
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| − | '''Other:''' [https://www.biorxiv.org/content/10.1101/2024.02.02.578715v1 APCalign: an R package workflow and app for aligning and updating flora names to the Australian Plant Census]<br />
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| − | | |
| − | == [[https://www.catalogueoflife.org/ Catalogue of Life]] ==
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| − | '''Taxonomic scope:''' All taxa but incomplete for some zoological groups (genera only) and for Algae<br />
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| − | '''Geographic scope:''' global<br />
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| − | '''Software:''' Editions are integrated into Checklist Bank and Global Names, see below.
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| − | | |
| − | ==[https://www.checklistbank.org/tools/name-match Checklist Bank (GBIF & Catalogue of Life)]==
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| − | '''Taxonomic scope:''' All taxa or specific groups depending on the target dataset chosen <br />
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| − | '''Geographic scope:''' Global or specific areas, depending on the target dataset chosen <br />
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| − | '''Software updated:''' May 16, 2024 (frontend), May 21, 2024 (backend) (checked May 23, 2024)<br />
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| − | '''Codebase/Documentation:''' [https://api.checklistbank.org/ https://api.checklistbank.org/]<br />
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| − | '''Data updated:''' depending on target dataset<br />
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| − | '''Limitation:''' Direct input of list limited to 6000 names. (With file upload for asynchronous response not limited) <br />
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| − | '''Local ID input returned:''' YES<br />
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| − | '''Local Name input returned:''' YES<br />
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| − | '''Aggregator name ID returned:''' YES - in download only<br />
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| − | '''Interactive mode for partial matches:''' NO<br />
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| − | '''OpenRefine reconciliation API:''' NO (but for OpenRefine possible with REST services)<br />
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| − | '''Other:''' Login with GBIF account is recommended, required for file upload (self-registration at [https://www.gbif.org/user/profile https://www.gbif.org/user/profile])<br />
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| − | | |
| − | ==[https://europlusmed.org/ Euro+Med PlantBase]==
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| − | '''Taxonomic scope:''' Plants <br />
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| − | '''Geographic scope:''' Europe and the Mediterranean area (see [https://europlusmed.org/explanations https://europlusmed.org/explanations] for details and a map <br />
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| − | Currently no name matching, but included in PESI (see below)<br />
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| − | | |
| − | ==[https://www.gbif.org/tools/species-lookup GBIF Taxonomic Backbone]==
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| − | '''Taxonomic scope:''' All taxa but incomplete for some zoological groups (genera only) and for Algae<br />
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| − | '''Geographic scope:''' global<br />
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| − | Software updated: <br />
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| − | '''Codebase/Documentation:''' see [https://www.gbif.org/developer/species Species API] <br />
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| − | '''Data updated:''' Current<br />
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| − | '''Limitation:''' 6000 records<br />
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| − | '''Local ID input returned:''' Yes <br />
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| − | '''Local Name input returned:''' Yes<br />
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| − | '''Aggregator name ID returned:''' No<br />
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| − | '''Interactive mode for partial matches:''' No<br />
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| − | '''OpenRefine reconciliation API:''' No<br />
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| − | Other: <br />
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| − | | |
| − | ==[https://verifier.globalnames.org/ Global Names Verifier]==
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| − | '''Taxonomic scope:''' defined by stored datasets - option to restrict matching to individual source dataset<br />
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| − | '''Geographic scope:''' global (cross datasets or with global datasets) or restricted by choice of dataset<br />
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| − | '''Software updated:''' active Feb. 2025<br />
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| − | '''Codebase/Documentation:''' https://github.com/gnames<br />
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| − | '''Codebase/Documentation: '''[https://resolver.globalnames.org/api https://resolver.globalnames.org/api]<br />
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| − | '''Data updated:''' Differs for stored datasets<br />
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| − | '''Limitation:''' 5000 names, at least in interactive mode<br />
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| − | '''Local ID input returned:''' No<br />
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| − | '''Local Name input returned:''' Yes<br />
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| − | '''Aggregator name ID returned:''' Yes (may be a taxon ID)<br />
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| − | '''Interactive mode for partial matches:''' No<br />
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| − | '''OpenRefine reconciliation API:''' yes, with step-by-step documentation: https://github.com/gnames/gnverifier/wiki/OpenRefine-readme <br />
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| − | '''Other:''' Offers a kind of query language that seems to be very flexible<br />
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| − | '''TETTRIS Notes''' includes:<br />
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| − | a 2021 Algabase set (but matching doesn’t work - [8/23]) <br />
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| − | a (supposedly) up to date Index Fungorum search – the output (HTML, JSON, CSV, TSV) contains a UUID in the „id“ field which is not the „Index Fungorum UUID“, probably a Global Names UUID. But the field „RecordID“ is the „Index Fungorum Registration Identifier“ which in a URL resolves to the name page, e.g.: [http://www.indexfungorum.org/Names/NamesRecord.asp?RecordID=229900 http://www.indexfungorum.org/Names/NamesRecord.asp?RecordID=229900] <br /> | |
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| − | ==[https://www.indexfungorum.org/ Index Fungorum]==
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| − | '''Taxonomic scope:''' Fungi <br />
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| − | '''Geographic scope:''' Global<br />
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| − | Currently no name matching, but included in Catalogue of Life and Global Names<br />
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| − | | |
| − | ==[https://www.itis.gov/ Integrated Taxonomic Information System - ITIS], [https://www.itis.gov/taxmatch.html Taxamatch service]
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| − | '''Taxonomic scope:''' Plants, animals, fungi, and microbes<br />
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| − | '''Geographic scope:''' "North America and the World"<br />
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| − | Currently (June 18,2025) access via Firefox not working properly.
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| − | | |
| − | ==[http://namematch.science.kew.org/ International Plant Name Index (IPNI)] <br />==
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| − | '''Taxonomic scope:''' Vascular plants (source: POWO - IPNI offered but not working) <br />
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| − | '''Geographic scope:''' Global<br />
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| − | '''Software updated:''' ? <br />
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| − | '''Codebase/Documentation''' ? <br />
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| − | '''Data updated:''' current <br />
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| − | '''Limitation:''' Not found - tested with 144.000 records<br />
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| − | '''Local ID input returned:''' YES <br />
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| − | '''Local Name input returned:''' YES<br />
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| − | '''Aggregator name ID returned:''' YES: IPNI-LSID<br />
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| − | '''Interactive mode for partial matches:''' NO<br />
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| − | '''OpenRefine reconciliation API:''' YES - documentation: [https://data1.kew.org/reconciliation/help https://data1.kew.org/reconciliation/help]<br />
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| − | '''Other:'''<br />
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| − | | |
| − | ==[https://lifewatch.be/e-lab LifeWatch]==
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| − | Scope: <br />
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| − | Software updated: <br />
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| − | Codebase/Documentation <br />
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| − | Data updated: <br />
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| − | Limitation: <br />
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| − | Other: <br />
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| − | Local ID input returned: <br />
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| − | Local Name input returned: <br />
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| − | Aggregator name ID returned: <br />
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| − | Interactive mode for partial matches: <br />
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| − | '''OpenRefine reconciliation API:''' NO <br />
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| − | | |
| − | ==[https://www.eu-nomen.eu/portal/taxamatch.php PESI / eu-nomen]==
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| − | '''Taxonomic scope:''' All taxa <br />
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| − | '''Geographic scope:''' Europe<br />
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| − | '''Software updated:''' 2011?<br />
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| − | '''Codebase/Documentation:''' By reference to components used (Taxamatch algorithm and scientific name parser)<br />
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| − | '''Data updated:''' 2014 <br />
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| − | '''Limitation:''' 5,000 names <br />
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| − | '''Local ID input returned:''' NO<br />
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| − | '''Local Name input returned:''' YES <br />
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| − | '''Aggregator name ID returned:''' YES (as provided by the primary aggregator)<br />
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| − | '''Interactive mode for partial matches:''' YES<br />
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| − | '''OpenRefine reconciliation API:''' NO<br />
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| − | Other: <br />
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| − | | |
| − | ==[https://docs.ropensci.org/taxize/articles/datasources.html ROpenSci taxize]==
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| − | '''Taxonomic scope:''' All taxa or specific groups, depending on dataset used <br />
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| − | '''Geographic scope:''' Global or regional, depending on dataset used <br />
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| − | '''Software updated:''' Feb 2025<br />
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| − | '''Codebase/Documentation:''' https://github.com/ropensci/taxize/<br />
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| − | Data updated: <br />
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| − | Limitation: <br />
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| − | Local ID input returned: <br />
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| − | Local Name input returned: <br />
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| − | '''Aggregator name ID returned:''' YES<br />
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| − | '''Interactive mode for partial matches:''' NO<br />
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| − | '''OpenRefine reconciliation API:''' n/a <br />
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| − | Other: <br />
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| − | | |
| − | ==[https://tnrs.biendata.org/ TNRS Taxonomic Name Resolution Service] <br />==
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| − | '''Taxonomic scope:''' Plants, WFO and vascular plants WCVP - potentially more datasets could be included<br />
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| − | '''Geographic scope:''' Global<br />
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| − | '''Software updated:''' v. 5.0 Feb. 24, 2021<br />
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| − | '''Codebase/Documentation:''' https://github.com/ojalaquellueva/TNRSapi<br />
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| − | '''Data updated:''' 2023 (2024)<br />
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| − | '''Limitation:''' Pasting 5000 names; API-processing unlimited (in batches of 5000)<br />
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| − | '''Local ID input returned:''' NO <br />
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| − | '''Local Name input returned:''' YES<br />
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| − | '''Aggregator name ID returned:''' NO<br />
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| − | '''Interactive mode for partial matches:''' YES<br />
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| − | '''OpenRefine reconciliation API:''' NO<br />
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| − | '''Other:''' API and R package available<br />
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| − | | |
| − | ==[https://legacy.tropicos.org/NameMatching.aspx Tropicos]==
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| − | '''Taxonomic scope:''' Plants<br />
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| − | '''Geographic scope:''' Global<br />
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| − | Software updated: <br />
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| − | Codebase/Documentation <br />
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| − | Data updated: <br />
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| − | Limitation: <br />
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| − | '''Local ID input returned:''' YES<br />
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| − | '''Local Name input returned:''' YES<br />
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| − | '''Aggregator name ID returned:''' YES: Tropicos-ID<br />
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| − | '''Interactive mode for partial matches:''' NO<br />
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| − | '''OpenRefine reconciliation API:''' NO<br />
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| − | Other: <br />
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| − | | |
| − | ==World Checklist of Vascular Plants (WCVP)==
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| − | '''Taxonomic scope:''' Vascular plants<br />
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| − | '''Geographic scope:''' Global<br />
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| − | Currently no name matching, but updated versions are included in TNRS and in ChecklistBank<br />
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| − | '''Other:''' R-Package [https://matildabrown.github.io/rWCVP/articles/rWCVP.html rWCVP]. [https://nph.onlinelibrary.wiley.com/doi/10.1111/nph.18919 See Brown & al. 2023.]
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| − | | |
| − | ==[https://list.worldfloraonline.org/matching.php World Flora Online WFO Plant List]==
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| − | '''Taxonomic scope:''' Plants<br />
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| − | '''Geographic scope:''' Global<br />
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| − | '''Software updated:''' ongoing June 2025 (not stated on website)<br />
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| − | '''Codebase/Documentation:''' [https://list.worldfloraonline.org/gql_index.php GraphQL API], [https://list.worldfloraonline.org/matching_rest.php Name Matching REST API], [https://list.worldfloraonline.org/reconcile_index.php Reconciliation API] <br />
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| − | '''Data updated:''' December 2024 (semiannual edition)<br />
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| − | '''Limitation:''' Not found - tested with 144.000 records<br />
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| − | '''Local ID input returned:''' YES <br />
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| − | '''Local Name input returned:''' YES <br />
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| − | '''Aggregator name ID returned:''' YES - WFO-ID <br />
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| − | '''Interactive mode for partial matches:''' YES <br />
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| − | '''OpenRefine reconciliation API:''' YES: [https://list.worldfloraonline.org/reconcile_index.php https://list.worldfloraonline.org/reconcile_index.php]<br />
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| − | '''Other:''' Service can be installed as local copy<br />
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| − | '''Other:''' R-Package World Flora - see [https://cran.r-project.org/web/packages/WorldFlora/index.html https://cran.r-project.org/web/packages/WorldFlora/index.html]<br />
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| − | | |
| − | ==[https://www.marinespecies.org/aphia.php?p=match WoRMS (World Register of Marine Species)]==
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| − | '''Scope:''' Marine species (global) <br />
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| − | Software updated: not stated<br />
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| − | Codebase/Documentation: <br />
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| − | '''Data updated:''' current<br />
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| − | '''Limitation:''' limited to 1500 names.<br />
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| − | '''Local ID input returned:''' NO<br />
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| − | '''Local Name input returned:''' YES<br />
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| − | '''Aggregator name ID returned:''' YES (AphiaID)<br />
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| − | '''Interactive mode for partial matches:''' NO<br />
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| − | '''OpenRefine reconciliation API:''' NO<br />
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