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GLOBAL BIODIVERSITY INFORMATION FACILITY WWW.GBIF.ORG Publishing EIA Biodiversity Data: Technology and Infrastructure Vishwas Chavan, Nick King and Francois Rogers Global Biodiversity Information Facility [email_address] Scoping Workshop on Developing an EIA Biodiversity Data Publishing Framework in South Africa 2-4 March 2010, Cape Town, South Africa
Contents ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
What are the challenges? More data types Richer user interface Better management Richer content Better synchronisation Improved discovery
EIA BIODIVERSITY DATA:  TYPES AND FORMATS
Indices Nomenclators Namebanks Biology Conservation Ecology Distribution Phylogenies ... Geolocation Country Collector Date … Voucher specimen Blood sample DNA Barcode Image Audio Video ... BHL Plazi.org ... EIA Biodiversity data are very diverse Evidence Metadata Taxon names Taxon concepts Observation Literature Species banks
DATA CAPTURE AND DIGITISATION TOOLS
Data Capture and Digitisation Tools Florin Pandora Taxis Cassia FieldNote Mandala ATTA BirdRecorder
uBio Tools ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
GBIF Templates ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
GBIF Informatics Architecture Improved access to Names, Metadata  and Primary Biodiversity  Data Distributed GBIF  informatics architecture Faster and easier  publishing of data
DATA DISCOVERY ,[object Object],[object Object],GBRDS: Global Biodiversity Resources Discovery System
DATA DISCOVERY: GBRDS REGISTRY
GBRDS, a Discovery System Consumers Data Publishers Searching Retrieving Discovering Discovery System Registering Service Publishers Others…
That links to resources… Who? Institutions, Collections … What? Where? When? How Data, Services, GUID/LSID… Location, Access points… Temporal Scope… Formats, protocols, qualities A distributed service ………… .. which resolves to information resources … ./
Global Biodiversity Resources Discovery System ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Global Biodiversity Resources Discovery System ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],GBRDS Registry Release: April 2010
DATA DISCOVERY:  METADATA CATALOGUES
User Perspective Data Producer   Perspective ,[object Object],[object Object],[object Object],[object Object],Craglia: http://www.ec-gis.org/Workshops/6ec-gis/papers/craglia-metadata.doc Two perspectives on metadata ,[object Object],[object Object],[object Object],[object Object]
Two levels of metadata Discovery Metadata Full Metadata ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
[object Object],[object Object],[object Object],[object Object],Metadata Standards ,[object Object],[object Object],IPT 1.1 Metadata Profile
DATA PUBLISHING
Key Components: the IPT IPT The Integrated Publishing Toolkit is a state-of-the-art tool to simplify the  mobilisation of biodiversity information resources such as Names, Metadata and primary biodiversity data Data Publisher Registration (GBRDS) + Publishing of Names, Metadata, Primary biodiversity data etc…
Simple process! The Integrated Publishing Toolkit (IPT) is designed to simplify the mapping, indexing and harvesting of Names, Metadata and Primary Biodiversity Data!
GBIF Integrated Publishing Toolkit (IPT) ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
* Darwin Core (Text-Archive) based on standard submitted to TDWG for review Feb 2009 IPT Publishes Through… More to come….
IPT Demo ,[object Object],[object Object],IPT 1.1 Release: April 2010
NAMES DATA
Scope of the Global Names Architecture Referencing names in Checklists to a common Nomenclatural Index
Checklist Bank  –  A Name Services brokerage Global broker of taxonomic data  Index of Taxonomic Catalogues and Annotated Checklists Extends the GBIF network to support publishing Species-level data
Publishing Checklists to GBIF ,[object Object],[object Object],[object Object],[object Object],[object Object]
Desktop Annotated Checklist Builder Create, manage, publish Synonymised checklists Vernacular Names Distribution data Bibliography Type/Specimen data Mac OS/ Windows Publishes “GBIF-ready” format DwC Archive – simple, extensible  Text-based format Q3 2010
Controlled Vocabularies Server ISO: Countries ISO: Language DwC: Basis of Record DwC: Nomenclatural Status DwC: Sex (Gender) DwC: Taxonomic Status IUCN: Threat Status … v ocabularies.gbif.org Vocabularies publishing platform  –  Internationalise all GBIF vocabularies
Controlled Vocabularies Server Create, manage, publish Extensions to Darwin Core Extend Occurrence Data Extend Species Data v ocabularies.gbif.org Tie to vocabularies that are also drafted and published to this system.  Then translate to your native langauge..
DATA QUALITY &  FITNESS-FOR-USE
Fitness-for-use ,[object Object],[object Object],[object Object],[object Object]
Loss of Data Quality ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Issues influencing data quality ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Data quality: Responsible Players ,[object Object],[object Object],[object Object],[object Object],[object Object]
Data Cleaning: definition & framework ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Tools and Best Practices http://mapstedi.colorado.edu/ http://manisnet.org/GeorefGuide.html
Tools and Best Practices GBIF Templates
Best Practice Guidelines All freely available
Best resource… ,[object Object],[object Object],[object Object],[object Object],[object Object],http://www2.gbif.org/TM1.pdf
DATA HOSTING CENTERS
Data Hosting Centers ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Data Hosting Centers
COMMUNITY BUILDING PLATFORMS
http://community.gbif.org
? Email:  [email_address] Skype:  vishwaschavan

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EIA Biodiversity Data Mobilisation

  • 1. GLOBAL BIODIVERSITY INFORMATION FACILITY WWW.GBIF.ORG Publishing EIA Biodiversity Data: Technology and Infrastructure Vishwas Chavan, Nick King and Francois Rogers Global Biodiversity Information Facility [email_address] Scoping Workshop on Developing an EIA Biodiversity Data Publishing Framework in South Africa 2-4 March 2010, Cape Town, South Africa
  • 2.
  • 3. What are the challenges? More data types Richer user interface Better management Richer content Better synchronisation Improved discovery
  • 4. EIA BIODIVERSITY DATA: TYPES AND FORMATS
  • 5. Indices Nomenclators Namebanks Biology Conservation Ecology Distribution Phylogenies ... Geolocation Country Collector Date … Voucher specimen Blood sample DNA Barcode Image Audio Video ... BHL Plazi.org ... EIA Biodiversity data are very diverse Evidence Metadata Taxon names Taxon concepts Observation Literature Species banks
  • 6. DATA CAPTURE AND DIGITISATION TOOLS
  • 7. Data Capture and Digitisation Tools Florin Pandora Taxis Cassia FieldNote Mandala ATTA BirdRecorder
  • 8.
  • 9.
  • 10. GBIF Informatics Architecture Improved access to Names, Metadata and Primary Biodiversity Data Distributed GBIF informatics architecture Faster and easier publishing of data
  • 11.
  • 13. GBRDS, a Discovery System Consumers Data Publishers Searching Retrieving Discovering Discovery System Registering Service Publishers Others…
  • 14. That links to resources… Who? Institutions, Collections … What? Where? When? How Data, Services, GUID/LSID… Location, Access points… Temporal Scope… Formats, protocols, qualities A distributed service ………… .. which resolves to information resources … ./
  • 15.
  • 16.
  • 17. DATA DISCOVERY: METADATA CATALOGUES
  • 18.
  • 19.
  • 20.
  • 22. Key Components: the IPT IPT The Integrated Publishing Toolkit is a state-of-the-art tool to simplify the mobilisation of biodiversity information resources such as Names, Metadata and primary biodiversity data Data Publisher Registration (GBRDS) + Publishing of Names, Metadata, Primary biodiversity data etc…
  • 23. Simple process! The Integrated Publishing Toolkit (IPT) is designed to simplify the mapping, indexing and harvesting of Names, Metadata and Primary Biodiversity Data!
  • 24.
  • 25. * Darwin Core (Text-Archive) based on standard submitted to TDWG for review Feb 2009 IPT Publishes Through… More to come….
  • 26.
  • 28. Scope of the Global Names Architecture Referencing names in Checklists to a common Nomenclatural Index
  • 29. Checklist Bank – A Name Services brokerage Global broker of taxonomic data Index of Taxonomic Catalogues and Annotated Checklists Extends the GBIF network to support publishing Species-level data
  • 30.
  • 31. Desktop Annotated Checklist Builder Create, manage, publish Synonymised checklists Vernacular Names Distribution data Bibliography Type/Specimen data Mac OS/ Windows Publishes “GBIF-ready” format DwC Archive – simple, extensible Text-based format Q3 2010
  • 32. Controlled Vocabularies Server ISO: Countries ISO: Language DwC: Basis of Record DwC: Nomenclatural Status DwC: Sex (Gender) DwC: Taxonomic Status IUCN: Threat Status … v ocabularies.gbif.org Vocabularies publishing platform – Internationalise all GBIF vocabularies
  • 33. Controlled Vocabularies Server Create, manage, publish Extensions to Darwin Core Extend Occurrence Data Extend Species Data v ocabularies.gbif.org Tie to vocabularies that are also drafted and published to this system. Then translate to your native langauge..
  • 34. DATA QUALITY & FITNESS-FOR-USE
  • 35.
  • 36.
  • 37.
  • 38.
  • 39.
  • 40. Tools and Best Practices http://mapstedi.colorado.edu/ http://manisnet.org/GeorefGuide.html
  • 41. Tools and Best Practices GBIF Templates
  • 42. Best Practice Guidelines All freely available
  • 43.
  • 45.
  • 49. ? Email: [email_address] Skype: vishwaschavan

Editor's Notes

  1. -to GBIF network, and for reuse by others as well
  2. -Nick mentioned the key challenges in his presentation entitled “Why the need for a global infrastructure to discover, share, publish and use biodiversity data
  3. -Nick mentioned the key challenges in his presentation entitled “Why the need for a global infrastructure to discover, share, publish and use biodiversity data