Mindboggle is an automated approach to labeling the anatomy and functional activity
of human brain MR data. A beta version of the software may be DOWNLOADED here.

COMING UP: Mindboggle is about to get a complete makeover!
I have registered Mindboggle with NITRC , the "Neuroimaging Informatics Tools and Resources Clearinghouse." I am also evaluating whether there is sufficient interest for me to port the entire codebase from Matlab to Python (free, easy, and open source) as a part of the recent NiPy initiative. NiPy is a "full-featured python program and development environment for analyzing functional imaging data," the work of an international group of leading statisticians, physicists, programmers, and neuroimaging methodologists. Please write to me to give me your opinion!

Most recent talk:

Google (August, 2007)


The primary manuscript describing Mindboggle is:

Arno Klein and Joy Hirsch. 2005.
Mindboggle: a scatterbrained approach to automate brain labeling. NeuroImage. 24(2): 261-280.

A second manuscript demonstrates its use with multiple brain atlases:

Arno Klein, Brett Mensh, Satrajit Ghosh, Jason Tourville, and Joy Hirsch. 2005.
Mindboggle: Automated brain labeling with multiple atlases. BMC Medical Imaging. 5:7


Most recent citations:

D.W. Shattuck, M. Mirza, V. Adisetiyo, C. Hojatkashani, G. Salamon, K.L. Narr, R.A. Poldrack, R.M. Bilder, and A.W. Toga. 2008.
Construction of a 3D probabilistic atlas of human cortical structures.
NeuroImage. 39: 1064-1080.

"Klein et al. (2005) produced an automated method based on a set of 20 manually labeled brains, each with 36 labels per hemisphere. In their work, each labeled brain was registered to the subject brain and served as an atlas. The most frequently occurring label at each voxel was then selected to label that voxel in the subject brain." "...the individual labelings and MRI data could also be applied using the multiatlas approach presented by Klein et al. (2005)." "The atlases used in the work by Klein et al. (2005) used 20 subjects and 36 cortical areas, with no subdivision of the occipital lobe."

A. Gholipour, N. Kehtarnavaz, R. Briggs, M. Devous, and K. Gopinath. 2007.
Brain Functional Localization: A Survey of Image Registration Techniques.
IEEE Transactions on Medical Imaging 26(4): 427-451.

"Some of the most important structural brain labeling algorithms, listed in Table III, are anatomical automatic labeling by Tzourio-Mazoyer et al. [43], sulcus extraction and assisted labeling by LeGualher [sic] et al. [272], program for assisted labeling of sulcus regions (PALS) by Rettman et al. [330], and Mindboggle by Klein and Hirsch [328]."

Please see other Mindboggle citations and appearances.