scratchpads intro: swiss orchid foundation
TRANSCRIPT
![Page 1: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/1.jpg)
Ed Baker!Natural History Museum, London, UK!
![Page 2: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/2.jpg)
Virtual Biodiversity ViBRANT!
Why Scratchpads?
![Page 3: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/3.jpg)
Virtual Biodiversity ViBRANT!
21st Century taxonomy
• Inventory the Earth’s species • Document their relationships • “Publish” & apply these data
Goal…
• 1.8 M described spp. (10M names) • 300M pages (over last 250 years) • 1.5-3B specimens
Data set…
People… • 4-6,000 scientists • 30-40,000 “pro-amateurs” • Many more citizen scientists?
The challenge for modern taxonomists
![Page 4: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/4.jpg)
Virtual Biodiversity ViBRANT!
The 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
![Page 5: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/5.jpg)
Virtual Biodiversity ViBRANT!
Towards a solution The 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
![Page 6: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/6.jpg)
Virtual Biodiversity ViBRANT!
Goal
�a scholarly communication system that is intertwined with the pursuit of natural history, rather than an after-
thought or annex�
![Page 7: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/7.jpg)
Virtual Biodiversity ViBRANT!
Your data 1
“Published” & reviewed on your site
3 Uploaded &
tagged
2
Fast Intuitive Fit for use
What is a Scratchpad? A website for you & your community
![Page 8: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/8.jpg)
Virtual Biodiversity ViBRANT!
Scratchpads Overview
• 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
![Page 9: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/9.jpg)
Virtual Biodiversity ViBRANT!
Scratchpad Application Form Free to any individual or community
![Page 10: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/10.jpg)
Virtual Biodiversity ViBRANT!
Categories of Scratchpads
Taxa (Classifications, taxon profiles, specimens, literature, images, maps, phenotypic,
genotypic & morphometric datasets, keys, phylogenies)
Projects Conservation Regions Societies
![Page 11: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/11.jpg)
Virtual Biodiversity ViBRANT!
Flexible Template Site With easy navigation
![Page 12: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/12.jpg)
Virtual Biodiversity ViBRANT!
![Page 13: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/13.jpg)
Virtual Biodiversity ViBRANT!
Sustaining Scratchpads ViBRANT: 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.
![Page 14: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/14.jpg)
Virtual Biodiversity ViBRANT!
ViBRANT 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 months
Collaboration… • 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
![Page 15: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/15.jpg)
Virtual Biodiversity ViBRANT!
Scratchpad Technical Overview
![Page 16: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/16.jpg)
Virtual Biodiversity ViBRANT!
Scratchpad management Scalable & sustainable technology
One virtual machine, open-source, self-archiving, backed-up, multi-site configuration (easy to move & upgrade, secure & reliable, low admin., low marginal costs)
Hardware, software & user support
![Page 17: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/17.jpg)
Virtual Biodiversity ViBRANT!
Scratchpad Developers Site
http://dev.scratchpads.eu/
![Page 18: Scratchpads Intro: Swiss Orchid Foundation](https://reader034.vdocument.in/reader034/viewer/2022052505/5559fbd7d8b42aa8098b4b78/html5/thumbnails/18.jpg)