BioCatalogue DILS & Enfin 2009 by Jits
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Transcript of BioCatalogue DILS & Enfin 2009 by Jits
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Jiten Bhagat University of Manchester
DILS 09 - ENFIN Colocated Workshop July 2009
Manchester, UK
http://www.biocatalogue.org
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Who
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Web Services?
• A component that you send some inputs to and get some output
• Over a network
• Different locations
• Chained and combined together
• Platform independent
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Why BioCatalogue? Guesstimate 3000+ publicly available Web Services in Life Sciences
Where? can I find them? advertise them?
What? do they do? can I use them? the cost? the licenses?
How? do they work? up to date?
Who? provides them? uses them? recommends them?
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The BioCatalogue A Public, Curated Catalogue of
Life Science Web Services
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DEMO The BioCatalogue Website
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Demo Summary
• Easy submission, easy discovery and better visibility of services
• Bringing service providers, curators, members, and regular users together
• Rich metadata
• Attribution
• Combining subjective, objective, measurable, social and automated information and metrics
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The BioCatalogue...
• Public, curated catalogue of Life Science Web Services
• Allow anyone to register, discover, curate Web Services
• Share with the community, your colleagues or yourself
• Community-sourced annotation, expert oversee
• Open content, open source, open platform With open REST interfaces (coming soon)
• Web 2.0 site and development
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Stakeholders • Service Providers
Advertise services Get help with monitoring Document services
• Users Find and use services
• Curators Help by annotating services Experts oversee and curate, together with community
• Tool Developers Integrate the BioCatalogue in their tools/applications
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Content • Community contributed
Service providers You!
• Sourced from partners and registries
• Expert curators
• Chiefly public services
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Metadata & Curation • Metadata from service description docs
Eg: WSDL
• Free text annotations Descriptions, examples, cost, license, contact details, tags
• Categories
• Controlled vocabularies
• Automated monitoring & testing
• Harvesting from other registries
• Working on developing curation mechanisms ‘agree’, ‘disagree’, ‘useful’ etc
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Curation Model
Quantitative Content
Tags
Service Model
Semantic Content
Ontologies
Functional Capabilities
Provenance
Operational Capabilities
Operational Metrics
Usage Policy
Community Standing
Ratings
Usage Statistics Free text
Searching Statistics
Usable and Useful
Understandable
Controlled vocabs
Carole Goble
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Project
• Started June 2008
• Public launch July 2009 at ISMB
• Funded by BBSRC
• Three years guaranteed funding June 08 – May 11
• Sustainability guarantee by EMBL-EBI
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Building on...
http://myexperiment.org
Web 2.0 environment for sharing workflows and other research assets
Crowd sourced content
Social curation of scientific assets
Socially share, discover and reuse research assets
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Development
• Built on Ruby on Rails
• Open source (BSD license) Source code hosted on RubyForge Publicly available
• 2 core developers 1 @ Manchester, 1@ EBI
• User driven design and development
• Agile and iterative
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Architecture
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Alternative Interfaces
• iGoogle
• Taverna
• myExperiment
• … and yours?
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Next?
Users
Services
Curation
Monitoring
Integration
test scripts
REST API Open Search myExperiment
Instances and versioning
QoS feeds
notification
ratings recommendations
Identity management
Content Provider engagement Policy identification
Taverna
Ownership
account management
BioMoby DAS
Curation tools
Google gadget
RSS/ATOM Try it first
Level of curation
Feedback providers
curators
More services
Internal messaging
www.biocatalogue.org/wiki
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Credits
Thomas Laurent Hamish McWilliams
Franck Tanoh Jiten Bhagat Carole Goble
Rodrigo Lopez Eric Nzuobontane
Steve Pettifer
Katy Wolstencroft
Robert Stevens
David De Roure
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Thank You