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Advanced Visualization Tools for Phylogenetic Trees and Biomolecular Sequences

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conan-fitzgerald
11 diapositives · 247 Views · Nov 08, 2014

Explore the Olduvai project, featuring the TreeJuxtaposer and SequenceJuxtaposer tools from the University of British Columbia. These interactive visualization platforms allow users to compare and navigate large phylogenetic trees and biomolecular sequences, effectively managing datasets of over a million nodes. With guaranteed visibility of user-defined groups, dynamic searches, and intuitive rubber sheet interaction, users can easily explore complex relationships and key details within large datasets. Enhance your research with innovative, scalable visualization techniques that illuminate biological patterns.

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Advanced Visualization Tools for Phylogenetic Trees and Biomolecular Sequences
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  1. Olduvai /Accordion Drawinghttp://olduvai.sf.net Tamara Munzner, James Slack, Kristian Hildebrand University of British Columbia

  2. TreeJuxtaposer • Visualization of phylogenetic trees • Interactive comparison of several trees with over one million nodes • Focus + Context • Guaranteed visibility • User-defined groups • Searching

  3. Focus+Context • Display large datasets using scalable drawing techniques • Stretch interesting details, smoosh surroundings • Interaction uses a rubber sheet with tacked down borders approach • Never push nodes off-screen • Never lose track of marked groups of interest

  4. User-Defined Groups • A group is a forest of color identified nodes • Select nodes or subtrees for group inclusion • Guranteed visibility of groups • Marked groups drawn even when small

  5. Searching • Text based search, reduce search results as you type • Search for nodes of interest with mouse

  6. Tree Comparison • Using our Best Corresponding Node (BCN) algorithm: • Mouse-over highlighting • Simultaneous tree navigation • Group selection across trees

  7. SequenceJuxtaposer • Navigation and comparison of biomolecular sequences • Aligned sequences shown horizontally • Same rubber sheet interaction metaphor as TreeJuxtaposer • Browse large collections of sequences of 30 million nodes • Differences in aligned columns are highlighted • Motif searching • Visualize annotations

  8. Differences • Difference threshold assists in determining aligned nucleotides, shows possible strong phylogenetic signals

  9. Searching • Motif searching • Matching bases are marked as landmarks and are guaranteed to be visible

  10. Annotations • Include annotations to understand sequences

  11. Webpage • Olduvai online: http://olduvai.sf.net