FreeSurfer is suite of powerful tools that provide extensive and automated analysis of key features in the human brain. This includes volumetric segmentation of most macroscopically visible brain structures (Fischl et al., 2002, 2004a), segmentation of hippocampal subfields (Van Leemput et al., 2009), inter-subject alignment based on cortical folding patterns (Fischl et al., 1999b), segmentation of white matter fascicles using diffusion MRI (Yendiki et al., 2008), parcellation of cortical folding patterns (Desikan et al., 2006; Destrieux et al., 2010; Fischl et al., 2004b), estimation of architectonic boundaries from in vivo data (Fischl et al., 2008, 2009; Hinds et al., 2008; Yeo et al., 2009), mapping of the thickness of cortical gray matter (Fischl and Dale, 2000), and the construction of surface models of the human cerebral cortex (Dale et al., 1999; Fischl et al., 1999a).
