We have an article under review that documents the Mindboggle software and its application to characterize human brain shape variation. In the meantime, please cite the bioRxiv version of this article (or other relevant articles in Papers):
A Klein, SS Ghosh, FS Bao, J Giard, Y Hame, E Stavsky, N Lee, B Rossa, M Reuter, E Chaibub Neto, A Keshavan. 2016.
Mindboggling morphometry of human brains.
bioRxiv. doi: http://dx.doi.org/10.1101/091322
The Mingboggle team