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Andrew Lonie
Victorian Life Sciences Computation Initiative, University of Melbourne
The Genomics Virtual Laboratory
What is the Genomics Virtual Lab?
NeCTAR funded nationally distributed
platform for genomics, built on the
Research Cloud ...
What is the Genomics Virtual Lab?
1. Build on-demand
2. Prebuilt servers for general use
3. Tutorials and workshops
4. R &...
2. Prebuilt GVL servers
http://genome.edu.au → USE
Galaxy-tut http://galaxy-tut.genome.edu.au
● For GVL Galaxy-based tutor...
3. Resources and tutorials
http://genome.edu.au → LEARN
Tutorials and Protocols based on Galaxy and
command line
● RNA-Seq...
Personal GVL Server GVL Cluster GVL
Suitable for Single user Single user
Small group/lab
Large groups
Institutions
Storage...
Personal GVL
CloudBioLinux
Research
Cloud
Personal GVL
CloudBioLinux
User
Data
Research
Cloud
Personal GVL
CloudBioLinux
Galaxy
TOOLS
User
Data
Research
Cloud
Personal GVL
CloudBioLinux
Galaxy
TOOLS
Indexed Genomes
User
Data
Research
Cloud
Personal GVL
CloudBioLinux
Galaxy
TOOLS
Indexed Genomes
User
Data
Research
Cloud
Personal GVL
CloudBioLinux
Galaxy
TOOLS
Indexed Genomes
User
Data
Research
Cloud
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The genomics virtuial laboratory - Andrew Lonie

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The NeCTAR funded Genomics Virtual Laboratory (genome.edu.au) supports genome informatics research using the Australian Research Cloud. This presentation is a chance for you to get up to speed with the latest progress and next steps for the GVL with Chief Investigator and Head of the Life Sciences Computation Centre, Andrew Lonie.

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Transcript of "The genomics virtuial laboratory - Andrew Lonie"

  1. 1. Andrew Lonie Victorian Life Sciences Computation Initiative, University of Melbourne The Genomics Virtual Laboratory
  2. 2. What is the Genomics Virtual Lab? NeCTAR funded nationally distributed platform for genomics, built on the Research Cloud and RDSI 1. Compute & workflow platforms 2. Tutorials, protocols 3. UCSC browser, datasets http://genome.edu.au http://nectar.org.au
  3. 3. What is the Genomics Virtual Lab? 1. Build on-demand 2. Prebuilt servers for general use 3. Tutorials and workshops 4. R & D
  4. 4. 2. Prebuilt GVL servers http://genome.edu.au → USE Galaxy-tut http://galaxy-tut.genome.edu.au ● For GVL Galaxy-based tutorials ● Has tools, datasets and Galaxy histories pre-installed Galaxy-Qld http://galaxy-qld.genome.edu.au ● For (Galaxy-based) research use ● Has lots of disk space, scalable as required UCSC Browser http://ucsc.genome.edu.au ● Local mirror of US-based browser - quicker to upload your tracks, etc
  5. 5. 3. Resources and tutorials http://genome.edu.au → LEARN Tutorials and Protocols based on Galaxy and command line ● RNA-Seq DGE ● Variant detection ● small RNA ● Microbial genome assembly ● others Some of these are based on GVL-developed tools
  6. 6. Personal GVL Server GVL Cluster GVL Suitable for Single user Single user Small group/lab Large groups Institutions Storage 60GB 100-5000GB TBs Compute 2 cores 8-64* cores >50 cores Requires NeCTAR account NeCTAR allocation: Compute and Volume storage Large NeCTAR allocation of compute + user-provided fast storage Runs on Any Research Cloud node RC nodes with volumes RC nodes co-located with fast file system Setup Automatic via website Automatic via website Collaboration with GVL team Configuration No configuration required Some configuration to tune analyses Dedicated management http://genome.edu.au → GET
  7. 7. Personal GVL CloudBioLinux Research Cloud
  8. 8. Personal GVL CloudBioLinux User Data Research Cloud
  9. 9. Personal GVL CloudBioLinux Galaxy TOOLS User Data Research Cloud
  10. 10. Personal GVL CloudBioLinux Galaxy TOOLS Indexed Genomes User Data Research Cloud
  11. 11. Personal GVL CloudBioLinux Galaxy TOOLS Indexed Genomes User Data Research Cloud
  12. 12. Personal GVL CloudBioLinux Galaxy TOOLS Indexed Genomes User Data Research Cloud
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