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Savant Genome Browser

Savant Genome Browser. Marc Fiume Department of Computer Science University of Toronto. Challenge in Genome Informatics. genomic data is generated in high volumes interpretation and analysis challenge many different tools have been developed for computation and visualization.

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Savant Genome Browser

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  1. Savant Genome Browser Marc Fiume Department of Computer Science University of Toronto

  2. Challenge in Genome Informatics • genomic data is generated in high volumes • interpretation and analysis challenge • many different tools have been developed for computation and visualization Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  3. HTS data analysis pipeline • substantial disconnect between the processes of computational analysis and visualization Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  4. Tools for Genomic Data Analysis • substantial disconnect between the processes of computational analysis and visualization Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  5. Savant Genome Browser • platform for integratedvisual analysis of genomic data • feature-rich genome browser • computationally extensible via plugin framework Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  6. Summary of Features Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  7. FEATURE demonstration • INTERFACE • HTS READ ALIGNMENTS • EXAMPLE PLUGIN: SNP FINDER Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  8. Power of visual analytics • task: find the correct parameter for some command line tool Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  9. Plugin Framework • unlocks the potential for performing visual analytics • platform is beneficialfor both users and tool developers • for users: perform data analyses on-the-fly within a visual environment using the latest tools • for programmers: enables simple development and deployment of various programs Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  10. Plugin Development • plugin development is easy • API contains over a hundred prebuilt functions (e.g. get track data, add bookmarks, draw custom graphics, etc.) • SDK includes API andexample plugin project on website Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  11. ConclusionS Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  12. Conclusions • Savant is a platform for integrated visualization and analysis of genomic data • stand-alone genome browser • novel features: e.g. table view, visualization modes, data selection, etc. • computationally extensible through plugin framework • makes interpretation and analysis of genomic data easier and more efficient Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

  13. Acknowledgements • Savant Team • Marc Fiume, Vanessa Williams, Andrew Brook, Michael Brudno • Usability and Testing • Paul Medvedev, MiskoDzamba, NilgunDonmez, • Daniel Lister, Andy Pang, ElangoCheran • http://compbio.cs.toronto.edu/savant Savant Genome Browser - http://compbio.cs.toronto.edu/savant/

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