Danis keynote

SCAR-MarBIN and ANTABIFCAML’s virtual heritage

www.biodiversity.aqwww.scarmarbin.be

Thursday 5 August 2010

http://www.scarmarbin.be




• Polar data sharing - our vision

• SCAR-MarBIN V1

• SCAR-MarBIN V2

• ANTABIF

• Products

• Nuts and Bolts

• Food for thought

Outline


Polar data sharing


The Antarctic Treaty

« In order to promote international cooperation in scientific investigation in Antarctica, as provided for in

Article III (1c) of the Treaty, the Contracting Parties agree that, to the greatest extent feasible and practicable: […]

Scientific observations and results from Antarctica shall be exchanged and made freely available. »


Our vision:Data are discoverable, open, linked, useful, and safe.

Copyright: © Christian Morel

Mark Parsons [THANKS]


Discoverable

Data should be accessible soon after collection (online wherever possible) in a discovery portal such as the Global Change Master Directory.



Open

Open Data is a philosophy and practice requiring that certain data are freely available to everyone, without restrictions from copyright, patents or other mechanisms of control.—Wikipedia



Linked

The term Linked Data is used to describe a method of exposing, sharing, and connecting data [using] the Web.—Wikipedia



Useful

Data from different projects, disciplines, and data centers should be easily understood and used in conjunction with each other in standard tools and analysis frameworks

Data should be well described so to be useful for a broad audience.



Interoperable

Metadata and data should be readily interchangeable between different polar data systems to enable data discovery across multiple portals.



Safe

Safe from hackers, from obsolescence, from undocumented change, from loss, and from the ravages of time.



Some initial recommendations for scientists and data centers

• Investigators should publish their IPY data immediately.

• The scientific community needs to recognize the value of good data through citation, consideration of data publication in promotion and tenure review, and by training young scientists in data management.

• Data centers must develop partnerships with other data centers in other countries and other disciplines to enhance data accessibility and interoperability.

• Data centers should partner with their scientific community to explicitly meet their needs, provide easy submission tools, and make the data more useful and integrated with other data.



SCAR-MarBINSCAR’s Marine Biodiversity Information Network

www.scarmarbin.be




• Build an electronic ecosystem

• Offer free and open access to data and technology

• Expose all the (biodiversity) data and metadata

• Remain community-driven

• Adopt strong standardization

• Work for science, conservation, management

General philosophy


SCAR-MarBIN

• www.scarmarbin.be

• Main funding: Belgian science Policy office

• International funding

• International Polar Year 2007/08

• Census of Antarctic Marine Life

• Ocean Biogeographic Information System

• Global Biodiversity Information Network

Marine Biodiversity Information Network




The webportal

taxonomy, biogeography

vizualisation

open access

800,000 visitors

5,800,000 hits

39,000,000 dld records

V2alpha coming up


The Register of Antarctic Marine Species

all taxa

all species

valid species

0 3.750 7.500 11.250 15.000

• The first RAMS

• Board of 60+ editors

• Feeds WoRMS, CoL and EoL

• 16,475 taxa

• 9,346 species


Biogeographic data

1,088,044 records178 datasets5,235 taxa

Feeds OBIS, GBIFDownloadable

WebGISOGC Webservices










SCAR-MarBIN V2

• 100% Open Source

• Geo-oriented

• improved search engine

• improved interface, direct access to data

• all resources available through Webservices

• alpha version to be deployed soon


SCAR-MarBIN V2


SCAR-MarBIN V2


SCAR-MarBIN V2


SCAR-MarBIN V2


[results]: webportal


ANTABIFAntarctic Biodiversity Information Facility

www.biodiversity.aq




ANTABIF

• www.biodiversity.aq

• Funding: Belgian science Policy office

• International Year of Biodiversity

• Single Access to all Antarctic Biodiversity data

• Australian Antarctic Division

• Global Biodiversity Information Network

Antarctic Biodiversity Information Facility


http://www.biodiversity.aq


ANTABIF

• Search engine: Full text (SOLR-Lucene)

• Database: PostGresql

• GIS: Geoserver, PostGIS, OpenLayers

• Web services: RESTish (all resources)

• Protocoles: DIF, DwCore, DwC archive, Tapir…etc

• GBIF tools : HIT, IPT…etc

• Hosting: BBPF

• Metadata system: Global Change Master Directory

Technology: 100% Open Source


Who’s in?



ANTABIF

• Webpresence:

• www.biodiversity.aq

• share.biodiversity.aq

• scratchpads.biodiversity.aq

• metadata portal (GCMD)

• social networks: FB, Twitter, LinkedIn, blablabla

• Building NOW on bulletproof technology and standards












[projects] some examples

Antarctic Field Guides

Georeferenced genetic data

Polar Macroscope Synthesis

Biogeographic Atlas of the SO

Scratchpads



Your data1

“Published” & reviewedon your site

3Uploaded &

tagged

2

Fast Intuitive Fit for use

What is a Scratchpad?A Toolkit for our community Vincent Smith [THANKS]


http://scratchpads.eu

ScratchpadsA multi-site implementation of Drupal

Vincent Smith [THANKS]


http://scratchpads.eu

ScratchpadsA multi-site implementation of Drupal



TaxonomyTaxonomy import, management and

navigation



Bibliographic data

Reference manager / Endnote support for bibliographies



Images

Image galleries,image upload & annotation



Phylogeny

Nexus / Newick import for visualizing phylogenies



Character Matricies

Molecular & morphological character matricies (discrete, morphometric and text characters)



Distribution Maps

Presence absence country maps



Specimens & locations

Specimen & location records (DwC)



Pages, Forums, Blogs, Newsletters

Web fora with e-mail integration

User blogs

Static web pages

Newsletters with e-mail integration



Mass Import

Import from CSV text file to any content type



Create & switch between content in any language

Multilingual Support Vincent Smith [THANKS]


Including 3rd party content

Integrating data & “publishing” in a Scratchpad

Taxon Pages Vincent Smith [THANKS]


Including 3rd party content

Integrating data & “publishing” in a Scratchpad

Taxon Pages Vincent Smith [THANKS]


Products


[apps]: examples• Challenging [biogeographic] theories

• Conservation

• Modeling

• Predicting change

• Expedition design

• Data exploration

• Gap analysis

• Observing systems Jan Strugnell [THANKS]Thursday 5 August 2010

All SpeciesHuw and me [THANKS]


Benthic SpeciesHuw and me [THANKS]


Planktonic SpeciesHuw and me [THANKS]


Birds & MammalsHuw and me [THANKS]


Limopsis prediction (0.04 – 0.53)Biogeo Atlas Gang [THANKS]








Limopsis Random ForestBiogeo Atlas Gang [THANKS]


Bivalve Richness (0.05-7.2)Biogeo Atlas Gang [THANKS]


SCAR-MarBIN in the literature









Convinced?


Nuts & Bolts


METADATA

• WHAT?

• Contact, abstract, citation

• much more can be entered

• HOW?

• online form: Datasets>Submit a dataset

• download data toolkit then email to me

• contact me







Your data is DISCOVERABLE


DATA• WHAT?

• ScientificName, Latitude, Longitude, Date

• much more can be added

• HOW?

• enter the metadata (!!!!)

• use DTK, or your own stuff, or more advanced techniques

• contact your data center or meThursday 5 August 2010





PICPolar Information Commons


GBIFGlobal Biodiversity Information Facility

www.gbif.org


http://www.gbif.org

http://www.gbif.org

Your data is DISCOVERABLE


Your data is OPEN


Your data is CITABLE


Your data is LINKED


Your data is INTEROPERABLE


Your data is USEFUL


Your data is SAFE


Food for thought• its a time of rapid change, need for timely change

in our behavior regarding data publication: NORMS

• IPY/CAML’s virtual legacy

• save the whales? save the birds? SAVE THE DATA FIRST! [in as many contexts as possible]

• flying across disciplines is exciting!

• information networks are organic

• this is just a beginning!Thursday 5 August 2010

Jump in!


www.biodiversity.aq

www.slideshare.net/scarmarbin

www.scarmarbin.be

[email protected]

Thanks!










Documents

Danis keynote