Hybrid Frames - Animated Narrative Sequences in Molecular Visualization

Information

• Publication Type: Bachelor Thesis
• Workgroup(s)/Project(s):
  • Visualization Group
• Date: August 2017
• Date (Start): 2. September 2016
• Date (End): 22. August 2017
• Matrikelnummer: 1392020
• First Supervisor: Johannes Sorger

Abstract

In bio-molecular visualizations animations are used to convey transitions between different representation states. For example, to understand the transition from a physical correct representation of a HIV molecule to an abstract visualization like a bar chart, an animation can be used. This method allows to trace the structures during the transition and therefore brings them into a direct relation. The disadvantage of an animation is that the presented content is fleeting. Therefore, the change over time cannot be compared or investigated in detail. To mitigate this disadvantage, we propose a hybrid visualization composed of an animation and a series of still images. The series of still images allows an overview over the transition and comparison of states, but the relation of the representations may get lost. For this reason, the animation is used. By clicking on a single frame inside the sequence the animation is played starting from the selected frame to the next frame in the sequence. The expressiveness of the narrative sequence of images is determined by the selected images. Therefore, we adapted Key Probe, an object based key frame extraction method developed by Huang et al., to be operable on molecular data. Molecular data consists of thousands of protein instances and is therefore challenging for object based key frame extraction methods. We introduced several optimization techniques to Key Probe. We show that the adapted Key Probe returns reasonable result within a reasonable computation time. The so extracted key frames are then displayed in a sequence of images together with a 3D animated view of the molecular data. This allows, additionally to the fast overview, an in-depth exploration of a specific sub-sequence of the animation.

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BibTeX

@bachelorsthesis{stappen_2017_animatedcomic,
  title =      "Hybrid Frames - Animated Narrative Sequences in Molecular
               Visualization",
  author =     "Stefan Stappen",
  year =       "2017",
  abstract =   "In bio-molecular visualizations animations are used to
               convey transitions between different representation states.
               For example, to understand the transition from a physical
               correct representation of a HIV molecule to an abstract
               visualization like a bar chart, an animation can be used.
               This method allows to trace the structures during the
               transition and therefore brings them into a direct relation.
               The disadvantage of an animation is that the presented
               content is fleeting. Therefore, the change over time cannot
               be compared or investigated in detail. To mitigate this
               disadvantage, we propose a hybrid visualization composed of
               an animation and a series of still images. The series of
               still images allows an overview over the transition and
               comparison of states, but the relation of the
               representations may get lost. For this reason, the animation
               is used. By clicking on a single frame inside the sequence
               the animation is played starting from the selected frame to
               the next frame in the sequence. The expressiveness of the
               narrative sequence of images is determined by the selected
               images. Therefore, we adapted Key Probe, an object based key
               frame extraction method developed by Huang et al., to be
               operable on molecular data. Molecular data consists of
               thousands of protein instances and is therefore challenging
               for object based key frame extraction methods. We introduced
               several optimization techniques to Key Probe. We show that
               the adapted Key Probe returns reasonable result within a
               reasonable computation time. The so extracted key frames are
               then displayed in a sequence of images together with a 3D
               animated view of the molecular data. This allows,
               additionally to the fast overview, an in-depth exploration
               of a specific sub-sequence of the animation.",
  month =      aug,
  address =    "Favoritenstrasse 9-11/E193-02, A-1040 Vienna, Austria",
  school =     "Institute of Computer Graphics and Algorithms, Vienna
               University of Technology ",
  URL =        "https://www.cg.tuwien.ac.at/research/publications/2017/stappen_2017_animatedcomic/",
}