Automated Thresholding for Brain Extraction

Aboutanos and Dawant [1] use histogram analysis to set the threshold for 3D T1-weighted MP-RAGE (magnetization-prepared rapid gradient echo) images where the gray matter is darker than the white. The peak intensity of the gray matter is selected as a lower threshold, and an upper threshold is set in the vicinity of the upper boundary of the white matter where the brain lobe starts to flatten. These parameters can be set automatically, but in some cases, the resulting brain segmentation may underestimate the gray matter and may allow attachment of the dura to the brain. This method for setting threshold values is unique to the MP-RAGE acquisition sequence. However, we have incorporated their thresholds for 3D MP-RAGE volumes in our algorithm with some success, although our results have yet to be validated.

TABLE 1 Comparison of manual and automated brain segmentation
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