Reconstruction of the cortical surface is of great importance as a biomarker for many brain diseases, and in recent years a number of advances in image processing and analysis have been made in the cortical reconstruction process. However, despite the scientific community employing a range of advanced surface reconstruction algorithms in order to improve quantitative accuracy, cortical thickness measurement is still a challenge. Here, we address the question of whether a better brain extraction procedure can improve the cortical surface reconstruction. Our analyses suggest that a more accurate brain mask directly affects the global cortical thickness estimate, reducing its quantitative uncertainty.
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