Taxonomic Name Reconciliation and Data Extension (2014 Kew Science Away Day)
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Transcript of Taxonomic Name Reconciliation and Data Extension (2014 Kew Science Away Day)
Plant Name Reconciliationand
Data Extension
Matthew BlissettLead Biodiversity Informatician – Royal Botanic Gardens, Kew
8 December 2014
Dataset with plant names
…and taxonomic status from TPL
How?
for i in $(< dataset ); do r=$(curl http://www.thep
lantlist.org/tpl1.1/ search?q=$i);
echo r | grep status >> output;
done
Complications…
• Spreadsheet: Schinus longifolius var. paraguariensis (Hassler) F. Barkley
• The Plant List: Schinus longifolia var. paraguariensis F.A. Barkley
How?
for i in $(< dataset ); do r=$(curl http://www.thep
lantlist.org/tpl1.1/ search?q=$i);
echo r | grep status >> output;
done
Better way
Schinus longifolius var. paraguariensis(Hassler) F. Barkley
Taxonomic status of 229196-2?
229196-2
Synonym
IPNI Reconciliation Service
IPNI Reconciliation Service
IPNI Reconciliation Service
OpenRefine
Better way
Schinus longifolius var. paraguariensis(Hassler) F. Barkley
229196-2