Goal       Usage         Implementation   Availability




       Next-generation sequencing
       request management sys...
Goal          Usage        Implementation       Availability




       Researchers                  Sequencing Core
     ...
Goal    Usage     Implementation   Availability



Sample and request infrastructure
Goal       Usage       Implementation   Availability



Functionality


       Researcher sample entry
       Sequencing t...
Goal     Usage      Implementation   Availability



Multiple services
Goal    Usage   Implementation   Availability



Sample entry
Goal    Usage     Implementation   Availability



Organize as projects
Goal    Usage    Implementation   Availability



Project based view
Goal   Usage    Implementation   Availability



Tracking and management
Goal     Usage     Implementation   Availability



Flow cell layout
Goal             Usage           Implementation    Availability



Leverages Galaxy infrastructure

  Display             ...
Goal                       Usage                           Implementation                         Availability



Sample r...
Goal         Usage         Implementation   Availability



Community


  Positives                Suggestions
       Cons...
Goal            Usage        Implementation     Availability




       Availability
       Repository tracking Galaxy dev...
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Next-generation sequencing request management system in Galaxy

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Next-generation sequencing request management system in Galaxy

  1. 1. Goal Usage Implementation Availability Next-generation sequencing request management system in Galaxy Brad Chapman 16 May 2010
  2. 2. Goal Usage Implementation Availability Researchers Sequencing Core Samples Analysis
  3. 3. Goal Usage Implementation Availability Sample and request infrastructure
  4. 4. Goal Usage Implementation Availability Functionality Researcher sample entry Sequencing tracking and management Layout of flow cells Full integration with Galaxy
  5. 5. Goal Usage Implementation Availability Multiple services
  6. 6. Goal Usage Implementation Availability Sample entry
  7. 7. Goal Usage Implementation Availability Organize as projects
  8. 8. Goal Usage Implementation Availability Project based view
  9. 9. Goal Usage Implementation Availability Tracking and management
  10. 10. Goal Usage Implementation Availability Flow cell layout
  11. 11. Goal Usage Implementation Availability Leverages Galaxy infrastructure Display Database grids samples form builder requests events form values Added to database One relationship table
  12. 12. Goal Usage Implementation Availability Sample request relationships Next-gen Next-gen Requests: Sequencing Sequencing Run 1 Run 2 Sample 2 Sample Sample 3 Library Pre-sequencing Sequencing Sequencing Requests: Construction Validation quantitation Sequencing Details results 1 results 2
  13. 13. Goal Usage Implementation Availability Community Positives Suggestions Consistent High level update interface summaries Excellent backend Internals Maintainability documentation Roadmap
  14. 14. Goal Usage Implementation Availability Availability Repository tracking Galaxy development http://bitbucket.org/chapmanb/ galaxy-central Hope to integrate with the main code base
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