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CanadensysA Network for Mobilizing Primary
Biodiversity Knowledge
David Shorthouse, Christian Gendreau
Canadensys HeadquartersUniversité de MontréalBiodiversity Centre
Network11 universities, 2 botanical gardens, 2
museums
GoalMobilize 3 million specimenrecords (20%) by end 2013
Canadensys Processes
http://www.canadensys.nethttps://github.com/Canadensys
Carole SinouData Publication Support Professional
Canadensys Products
Where = georeferencingWhat = species identity
Processing
Searchable data
Web app
DarwinCore Archive
narwhal-processor
PostgreSQLPostGIS
ElasticSearch
Canadensys Explorer Windshaft
pull from
read raw data
insert data
query
narwhal-processor
Goal Standardize data for optimal retrieval• Geography (continent, country, coordinates …)• Dates (different formats, partial dates)• Numerics (allow interval search)• Scientific names (atomize, aggregate)
Geospatial stack
Integrate Publishing Toolkit 2.0.4
• http://code.google.com/p/gbif-providertoolkit/• Permits management, administration, publishing of
occurrence, checklist, metadata resources– Create metadata (Ecological Metadata Language, eml.xml)– Map resource to DarwinCore and optional extensions
• Register resources with GBIF• RSS feed for changes (eg updates) in resources
Aa aleacea
Limulus polyphemus
Kiwa hirsuta
Osedax frankpressi
Kingia australis
Pieris japponica
Pieris rapae
Trypanosoma brucei
Homo sapiens
Ba humbugi
The problem with scientific names
• No comprehensive catalog of species• Names ≠ species• The species problem – species concepts• Competing classifications / phylogenies• Many names for one taxon• One name for many taxa• ‘Names’ are more than code-compliant scientific names
A working solution
• Inclusive– Accommodate alternate perspectives
• Reconciliation– Map names among and between each other
• Disambiguation– Context to assign homonymic names to rightful place
Current Activities
Proposition
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