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The abdominal MRIs were bias field-corrected 27 and then automatically segmented with in-house developed software, written in MatLab (MathWorks, Natick, MA).
Normal brain parenchyma was automatically segmented with the time-to-peak criteria after cerebrospinal fluid removal and preliminary vessel voxel removal.
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Each image is automatically segmented into regions ("blobs") with associated color and texture descriptors.
Given the fissures detected, the lobe borders were automatically segmented by fitting an atlas with complete fissures (see van Rikxoort et al. [ 10]).
Because B-scans were not realigned (in depth or laterally) before analysis, misaligned B-scans did not match with the automatically segmented interfaces due to the restrictions placed on the interfaces' 3D shapes by the regularization procedure.
Three additional boundaries were created relative to the automatically segmented inner nuclear layer (INL), with the added boundaries positioned at the center and at 16 µm anterior and posterior to the INL.
The VSA was at first automatically segmented using the Segment software function for automatic segmentation of the LV, and the contours were subsequently manually adjusted for accuracy.
Synaptic junctions within these volumes were visualized, automatically segmented, and reconstructed in 3 dimensions with Espina software (Morales et al. 2011; Fig. 1).
In addition, NFL thickness was automatically segmented per A-scan on all volumes with another method based on adaptive thresholding [ 20– 20].
Van de Pol et al. [3] compared manually traced to automatically segmented hippocampi (using fluid registration) in 18 participants with Mild Cognitive Impairment assessed at two time points two years apart.
Neuroimaging data were analyzed with FDA-approved software (NeuroQuant) that automatically segmented and quantified hippocampal volumes.
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