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Updated: Apr 7, 2026

From Voxels to Knowledge: A Practical Guide to the Segmentation of Complex Electron Microscopy 3D-Data
Published on: August 13, 2014
Synthesis of intensity gradient and texture information for efficient three-dimensional segmentation of medical
Sreenath Rao Vantaram1, Eli Saber2, Sohail A Dianat2
1Rochester Institute of Technology , Chester F. Carlson Center for Imaging Science, 1 Lomb Memorial Drive, Rochester, New York 14623, United States.
Abstract:
We propose a framework that efficiently employs intensity, gradient, and textural features for three-dimensional (3-D) segmentation of medical (MRI/CT) volumes. Our methodology commences by determining the magnitude of intensity variations across the input volume using a 3-D gradient detection scheme. The resultant gradient volume is utilized in a dynamic volume growing/formation process that is initiated in voxel locations with small gradient magnitudes and is concluded at sites with large gradient magnitudes, yielding a map comprising an initial set of partitions (or subvolumes). This partition map is combined with an entropy-based texture descriptor along with intensity and gradient attributes in a multivariate analysis-based volume merging procedure that fuses subvolumes with similar characteristics to yield a final/refined segmentation output. Additionally, a semiautomated version of the aforestated algorithm that allows a user to interactively segment a desired subvolume of interest as opposed to the entire volume is also discussed. Our approach was tested on several MRI and CT datasets and the results show favorable performance in comparison to the state-of-the-art ITK-SNAP technique.

