F05-Cloud-Sequencescape
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Transcript of F05-Cloud-Sequencescape
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Faculty view
DNA pipelines
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• Support every technology on the block • Primary pipelines are Solexa sequencing
and Genotyping • Working at a different scale then most
people
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Sample management /
Reporting
LIMS
Data archiving Data analysis
Data release
Run tracking/ Data QC
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Faculty IT view
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Key parts of LIMS
• Freezer tracking • Aliquot tracking • Information capture • Study management • Capacity
management • Back office
• Automation • Data release • Reporting • Reagent tracking • Liquid handling • Workflows
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Organization of information
created from
based on
contains
parent child payed for by
released as
created from
processed in
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Creating new lab pipelines
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Development • Incremental release every two weeks.
Larger projects run in more classical way. • Developed directly on github
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Show stoppers for sharing
• Local dependencies • Differences in protocols • Not wanting to share what is being done • Trying to externalise them were possible
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Example: Creating a new pipeline
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Alternatives
• Thermo Fisher – Nautilus • Genologics • WikiLIMS • Excel or Google docs • Sequencing companies/centers (still
needs tracking)
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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/npg
http://github.com/sanger