e afgan - zero to a bioinformatics analysis platform in four minutes
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Presentation at BOSC2012 by E Afgan - Zero to a bioinformatics analysis platform in four minutesTRANSCRIPT
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Zero to a Bioinformatics Analysis Platform in Four Minutes
Enis Afgan, Brad Chapman, Konstantinos Krampis, James Taylor
BOSC 2012 Long Beach, CA
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Australian National Research Cloud
Provide computational infrastructure to support researchers needs
Compute and Storage
(~25,000 cores + ? PB)
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What’s required for genomics? • Compute
• Storage
• Data resources o Ensembl, dbSNP, etc
• Tools
• Visualisation
• Protocols
• Expertise
• Community!
✔ ✔
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Genomics Virtual Lab
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Compute + Storage = IaaS
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shell vs. IDE
We want it now
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What’s required for genomics? • Compute
• Storage
• Data resources o Ensembl, dbSNP, etc
• Tools
• Visualisation
• Protocols
• Expertise
• Community!
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Galaxy
BioCloudCentral.org
CloudBioLinux
CloudMan y
y
y
y
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Playing together • CloudBioLinux
o Quickly build-your-own tool suite / ready to roll o Graphical & command line access
• CloudMan o Create a scalable and shareable processing platform
• Galaxy o Do exploratory analysis
• BioCloudCentral.org o Get started easily
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• Bundle infrastructure with an analysis tool suite, quickly o Validate our approach o Easier to maintain and replicate
• Expose it all via at a variety of interfaces o Support meta-analysis workflow
• Move forward o Add new features o Start using it
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And one new thing…
blend
o A python library for interacting with Galaxy’s API o And CloudMan o And BioCloudCentral
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Request compute infrastructure
Manipulate compute infrastructure
Upload data and run analyses
Test
Docs and examples
Distribute
Automate repetitive tasks
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Docs and examples included http://blend.readthedocs.org/
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Playing together • CloudBioLinux
o Build-your-own tool suite / ready to roll o Graphical & command line access
• CloudMan o Create a scalable and shareable processing platform
• BioCloudCentral.org o Get started easily
• Galaxy o Do exploratory analysis
• Blend library o Automate repetitive tasks: analysis AND infrastructure
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Questions? cloudbiolinux.org usecloudman.org usegalaxy.org biocloudcentral.org blend.readthedocs.org Visit the poster session (poster #10)