Rapid automated three-dimensional tracing of neurons from confocal image stacks.

Algorithms are presented for fully automatic three-dimensional (3D) tracing of neurons that are imaged by fluorescence confocal microscopy. Unlike previous voxel-based skeletonization methods, the present approach works by recursively following the neuronal topology, using a set of 4 × N 2 direction...

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Bibliographic Details
Published in:	IEEE Transactions on information technology in biomedicine 6, 2 (2002).
Main Author:	Al-Kofahi, K.A
Format:	Article
Language:	English
Subjects:	3D space. 500 MHz. 70 MB. Human Brain Project. Adaptive step size estimation. Algorithms. Axonal structures. Centerlines. Confocal image stacks. Correlation kernels. Dendritic structures. Dynamic adaptation. Fluorescence confocal microscopy. Fully automatic 3D tracing. Generalized 3D cylinder model. Graph branch lengths. Graph theoretic representations. High-throughput angiogenesis assays. High-throughput neurobiology assays. Image statistics. Kernels. Large-scale automated tissue studies. Longest branch. Neuronal topology. Photon noise robustness. Rapid automated 3D neuron tracing. Rapid on-line image analysis. Retinal vasculature. Soma centroid. Soma interconnectivity. Soma labeling. Soma volume. Structure discontinuity robustness. Structure hollowness robustness. Varying contrast robustness. Voxel-based skeletonization methods.