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Page 1: Progress on the Genomics Virtual Laboratory - Andrew Lonie

Andrew Lonie1 & Michael Pheasant2

1 Victorian Life Sciences Computation Initiative, University of Melbourne2University of Queensland

Progress on the Genomics Virtual Laboratory

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What is the Genomics Virtual Lab?

NeCTAR funded nationally distributed platform for genomics, built on the Research Cloud and RDSI

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What is the Genomics Virtual Lab?

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What did I promise today?

Demonstrate GVL capabilities and discuss progress:

1. scalable infrastructure on the Research Clouda. workflow management system based on Galaxyb. a bioinformatics toolkit (for command-line users)

2. a visualisation service (UCSC Genome Browser)3. a developing set of tutorials and exemplar workflows

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Workflow platforms

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Cluster-on-the-cloud

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Use the public GVL, or roll your own

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Building a GVL

http://usecloudman.orgCloudman = Middleware for building, distributing and managing cloud-based platforms, especially Galaxy

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Building a GVL image

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Tutorials and workshops

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genome.edu.au

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Progress and timelines

Dec 2012Prototype at Qld (UQ) and Vic (UoM)

● Galaxy● UCSC browser + databases● Bioinformatics cluster-on-the-cloud● Initial tutorials and exemplars

Jun 2013Production at Qld (UQ) and Vic (UoM), prototype @ other Research Cloud nodesData coordination centres, data catalogues

Dec 2013Additional workflows and tutorialsAdditional nodes

Jun 2014Operations (support centres - subscriptions)

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Making the GVL possible

Go8 Universities● The University of Queensland● The University of Melbourne● Monash University● The University of Sydney● The University of Western Australia

Medical Research Institutes● The Garvan Institute of Medical

Research● Victor Chang Cardiac Research Institute● Baker IDI Heart and Diabeties Institute● Peter MacCallum Cancer Centre

eResearch Agencies● Queensland Facility for Advanced

Bioinformatics (QFAB)● Queensland Cyber Infrastructure

Foundation (QCIF)● Life Sciences Computation Centre

(LSCC) at the VLSCI● Victorian eResearch Strategic

Initiative (VeRSI)

National Agencies● NeCTAR, DIISRTE● CSIRO● EMBL Australia● Bioplatforms Australia (BPA)● Australian Genome Research Facility

(AGRF)● Australian National Data Service

(ANDS)