GPU-based Multi-Volume Rendering of Complex Data in Neuroscience and Neurosurgery

Johanna Beyer
GPU-based Multi-Volume Rendering of Complex Data in Neuroscience and Neurosurgery
Supervisor: Markus Hadwiger, Katja Bühler, Eduard Gröller
Duration: -2009
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Abstract

Recent advances in image acquisition technology and its availability in the medical and bio-medical fields have lead to an unprecedented amount of high-resolution imaging data. However, the inherent complexity of this data, caused by its tremendous size, complex structure or multi-modality poses several challenges for current visualization tools. Recent developments in graphics hardware architecture have increased the versatility and processing power of today’s GPUs to the point where GPUs can be considered parallel scientific computing devices. The work in this thesis builds on the current progress in image acquisition techniques and graphics hardware architecture to develop novel 3D visualization methods for the fields of neurosurgery and neuroscience. The first part of this thesis presents an application and framework for planning of neurosurgical interventions. Concurrent GPU-based multi-volume rendering is used to visualize multiple radiological imaging modalities, delineating the patient’s anatomy, neurological function, and metabolic processes. Additionally, novel interaction metaphors are introduced, allowing the surgeon to plan and simulate the surgial approach to the brain based on the individual patient anatomy. The second part of this thesis focuses on GPU-based volume rendering techniques for large and complex EM data, as required in the field of neuroscience. A new mixed-resolution volume ray-casting approach is presented, which circumvents artifacts at block boundaries of different resolutions. NeuroTrace is introduced, an application for interactive segmentation and visualization of neural processes in EM data. EM data is extremely dense, heavily textured and exhibits a complex structure of interconnected nerve cells, making it difficult to achieve high-quality volume renderings. Therefore, this thesis presents a novel on-demand nonlinear noise removal and edge detection method which allows to enhance important structures (e.g., myelinated axons) while de-emphasizing less important regions of the data. In addition to the methods and concepts described above, this thesis tries to bridge the gap between state-of-the-art visualization research and the use of those visualization methods in actual medical and bio-medical applications.

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@phdthesis{beyer-2009-gpu,
  title =      "GPU-based Multi-Volume Rendering of Complex Data in
               Neuroscience and Neurosurgery",
  author =     "Johanna Beyer",
  year =       "2009",
  abstract =   "Recent advances in image acquisition technology and its
               availability in the medical and bio-medical fields have lead
               to an unprecedented amount of high-resolution imaging data.
               However, the inherent complexity of this data, caused by its
               tremendous size, complex structure or multi-modality poses
               several challenges for current visualization tools. Recent
               developments in graphics hardware architecture have
               increased the versatility and processing power of
               today’s GPUs to the point where GPUs can be
               considered parallel scientific computing devices. The work
               in this thesis builds on the current progress in image
               acquisition techniques and graphics hardware architecture to
               develop novel 3D visualization methods for the fields of
               neurosurgery and neuroscience. The first part of this thesis
               presents an application and framework for planning of
               neurosurgical interventions. Concurrent GPU-based
               multi-volume rendering is used to visualize multiple
               radiological imaging modalities, delineating the
               patient’s anatomy, neurological function, and
               metabolic processes. Additionally, novel interaction
               metaphors are introduced, allowing the surgeon to plan and
               simulate the surgial approach to the brain based on the
               individual patient anatomy. The second part of this thesis
               focuses on GPU-based volume rendering techniques for large
               and complex EM data, as required in the field of
               neuroscience. A new mixed-resolution volume ray-casting
               approach is presented, which circumvents artifacts at block
               boundaries of different resolutions. NeuroTrace is
               introduced, an application for interactive segmentation and
               visualization of neural processes in EM data. EM data is
               extremely dense, heavily textured and exhibits a complex
               structure of interconnected nerve cells, making it difficult
               to achieve high-quality volume renderings. Therefore, this
               thesis presents a novel on-demand nonlinear noise removal
               and edge detection method which allows to enhance important
               structures (e.g., myelinated axons) while de-emphasizing
               less important regions of the data. In addition to the
               methods and concepts described above, this thesis tries to
               bridge the gap between state-of-the-art visualization
               research and the use of those visualization methods in
               actual medical and bio-medical applications.",
  address =    "Favoritenstrasse 9-11/186, A-1040 Vienna, Austria",
  school =     "Institute of Computer Graphics and Algorithms, Vienna
               University of Technology",
  month =      oct,
  URL =        "http://www.cg.tuwien.ac.at/research/publications/2009/beyer-2009-gpu/",
}