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Scratchpads Intro: Swiss Orchid Foundation

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Scratchpads Intro: Swiss Orchid Foundation

  1. 1. Ed Baker!Natural History Museum, London, UK!
  2. 2. ViBRANT! Virtual BiodiversityWhy Scratchpads?
  3. 3. ViBRANT! Virtual Biodiversity21st Century taxonomyThe challenge for modern taxonomists Goal… •  Inventory the Earth’s species •  Document their relationships •  “Publish” & apply these data Data set… •  1.8 M described spp. (10M names) •  300M pages (over last 250 years) •  1.5-3B specimens People… •  4-6,000 scientists •  30-40,000 “pro-amateurs” •  Many more citizen scientists?
  4. 4. ViBRANT! Virtual BiodiversityThe problem Science is global •  It needs global standards •  Global workflows •  Cooperation of global players Science is carried out locally •  By local scientists •  Being part of local infrastructures •  Having local funders
  5. 5. ViBRANT! Virtual BiodiversityTowards a solutionThe European Distributed Institute of Taxonomy •  A Network of Excellence (NoE) •  29 leading European, North American, & Russian natural history collections-based institutions •  Circa 12M €, funded under EU FP6 •  March 2006 - February 2011 Products… •  Funding •  Training & outreach •  Websites •  Integrated scientific activities •  Inventories •  Computer tools
  6. 6. ViBRANT! Virtual BiodiversityGoal a scholarly communication system that is intertwined with the pursuit of natural history, rather than an after- thought or annex
  7. 7. ViBRANT! Virtual BiodiversityWhat is a Scratchpad? A website for you & your community 1 2 3 Your data Uploaded & “Published” & reviewed tagged on your site Fast Intuitive Fit for use
  8. 8. ViBRANT! Virtual BiodiversityScratchpadsOverview •  Hosted websites for taxonomists •  Research & publication platform •  Modular (Drupal) & flexible •  Supports the taxonomic workflow •  Bottom-up design, agile dev. •  Ecosystem of communities (330+) •  7,350+ users (unpaid) from 2007
  9. 9. ViBRANT! Virtual BiodiversityScratchpad Application FormFree to any individual or community
  10. 10. ViBRANT! Virtual BiodiversityCategories of Scratchpads Taxa (Classifications, taxon profiles, specimens, literature, images, maps, phenotypic, genotypic & morphometric datasets, keys, phylogenies) Conservation Projects Regions Societies
  11. 11. ViBRANT! Virtual BiodiversityFlexible Template SiteWith easy navigation
  12. 12. ViBRANT! Virtual Biodiversity
  13. 13. ViBRANT! Virtual BiodiversitySustaining ScratchpadsViBRANT: Building on EDIT & the Scratchpads “To set up the means, tools and infrastructure to produce a more rational and a more effective framework for European Biodiversity research” •  A Virtual Research Environment (Scratchpads) where users can safely store, share and manage their research information. •  Analytical services for users to build identification keys and phylogenetic trees. •  A publication platform for users to automatically compile taxonomic manuscripts from their research database. •  A portal for users to centrally access publicly accessible biodiversity research information and literature. •  Training, support & sociological study, helping research communities to use these tools and services. •  A standards compliant technical architecture that can be sustained by the biodiversity research community.
  14. 14. ViBRANT! Virtual BiodiversityViBRANT logistics •  Starts December 2010 (36 months) •  Project website (http://vbrant.eu) •  Virtual Research Communities, CP-CSA, EU FP7 •  €6.2M Euros (EU Contribution €4.75M) •  17 Partners in 9 countries, 603 person monthsCollaboration… •  ESFRI Projects: LifeWatch, ELIXIR & EMBRC •  GBIF - controlled vocabularies, nodes & observational data recording •  PESI, 4D4Life & related EU projects •  Encyclopedia of Life, Barcode of Life & Biodiversity Heritage Library •  South African National Biodiversity Institute & Atlas of living Australia
  15. 15. ViBRANT! Virtual BiodiversityScratchpad Technical Overview
  16. 16. ViBRANT! Virtual BiodiversityScratchpad management Scalable & sustainable technology Hardware, software & user supportOne virtual machine, open-source, self-archiving, backed-up, multi-site configuration (easy to move & upgrade, secure & reliable, low admin., low marginal costs)
  17. 17. ViBRANT! Virtual BiodiversityScratchpad Developers Site http://dev.scratchpads.eu/

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