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Interactive Histology of Large-Scale Biomedical Image Stacks
November/December 2010 (vol. 16 no. 6)
pp. 1386-1395
Won-Ki Jeong, Harvard University
Jens Schneider, King Abdullar University of Science and Technology
Stephen Turney, Harvard University
Beverly E Faulkner-Jones, BIDMC Pathology and Harvard Medical School
Dominik Meyer, Technische Universität München
Rüdiger Westermann, Technische Universität München
R. Clay Reid, Harvard Medical School
Jeff Lichtman, Harvard University
Hanspeter Pfister, Harvard University
Histology is the study of the structure of biological tissue using microscopy techniques. As digital imaging technology advances, high resolution microscopy of large tissue volumes is becoming feasible; however, new interactive tools are needed to explore and analyze the enormous datasets. In this paper we present a visualization framework that specifically targets interactive examination of arbitrarily large image stacks. Our framework is built upon two core techniques: display-aware processing and GPU-accelerated texture compression. With display-aware processing, only the currently visible image tiles are fetched and aligned on-the-fly, reducing memory bandwidth and minimizing the need for time-consuming global pre-processing. Our novel texture compression scheme for GPUs is tailored for quick browsing of image stacks. We evaluate the usability of our viewer for two histology applications: digital pathology and visualization of neural structure at nanoscale-resolution in serial electron micrographs.

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Index Terms:
Gigapixel viewer, biomedical image processing, GPU, texture compression
Won-Ki Jeong, Jens Schneider, Stephen Turney, Beverly E Faulkner-Jones, Dominik Meyer, Rüdiger Westermann, R. Clay Reid, Jeff Lichtman, Hanspeter Pfister, "Interactive Histology of Large-Scale Biomedical Image Stacks," IEEE Transactions on Visualization and Computer Graphics, vol. 16, no. 6, pp. 1386-1395, Nov.-Dec. 2010, doi:10.1109/TVCG.2010.168
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