F05-Cloud-Sequencescape
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F05-Cloud-Sequencescape

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Sequencescape - a cloud enabled laboratory information management system (LIMS) for second and third generation sequencing

Sequencescape - a cloud enabled laboratory information management system (LIMS) for second and third generation sequencing

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  • 1. Sequencescape Lars G. T. Jorgensen <lj3@sanger.ac.uk>
  • 2. Faculty view DNA pipelines
  • 3. •  Support every technology on the block•  Primary pipelines are Solexa sequencing and Genotyping•  Working at a different scale then most people
  • 4. Sample management / Reporting LIMS Run tracking/ Data QC Data archiving Data analysis Data release
  • 5. Faculty IT view
  • 6. Key parts of LIMS•  Freezer tracking •  Automation•  Aliquot tracking •  Data release•  Information capture •  Reporting•  Study management •  Reagent tracking•  Capacity •  Liquid handling management •  Workflows•  Back office
  • 7. Organization of information created from contains released as based on created from child parent payed for by processed in
  • 8. Creating new lab pipelines
  • 9. Development•  Incremental release every two weeks. Larger projects run in more classical way.•  Developed directly on github
  • 10. Show stoppers for sharing•  Local dependencies•  Differences in protocols•  Not wanting to share what is being done•  Trying to externalise them were possible
  • 11. Example: Creating a new pipeline
  • 12. Alternatives•  Thermo Fisher – Nautilus•  Genologics•  WikiLIMS•  Excel or Google docs•  Sequencing companies/centers (still needs tracking)
  • 13. Need your input •  What do you need from a LIMS? •  What information do you capture? •  What do you see the role of a LIMS being?http://www.sanger.ac.uk/resources/software/npghttp://github.com/sanger