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The basal ganglia (BG) modulate cerebral output by forming loops with the thalamus and cortex. The striatum is a portion of the BG, which includes the caudate and putamen, both of which exhibit significant neuronal degeneration in Huntington's disease (HD) in the decade leading up to the onset of clinical symptoms and throughout the course of the clinical disease. Thus, striatal volume should prove to be a sensitive biomarker for HD clinical trials. Traditionally, segmentation of striatal shape and volume has been performed manually on sequential MRI cross sections using various computer programs. Automated segmentation programs could prove to be a more effective way to map structures as they should, in principle, be faster, be more objective, and not require extensive training. The purpose of this study was to test SegLDDMM, an experimental computer program designed to automatically …