Be careful what you ask for :)

--------------------------------------------------------------
if you use surface recons


Dale, A.M. and M.I. Sereno (1993) Improved localization of cortical
activity by combining EEG and MEG with MRI cortical surface reconstruction:
A linear approach. Journal of Cognitive Neuroscience 5:162-176.

Segonne F, Dale, AM, Busa E, Glessner M, Salvolini U, Hahn HK,
Fischl B, A Hybrid Approach to the Skull-Stripping Problem in MRI.
NeuroImage, 22,  pp. 1160-1075, 2004

Dale, A.M., Fischl, Bruce, Sereno, M.I., (1999). Cortical Surface-Based
Analysis I: Segmentation and Surface Reconstruction. NeuroImage
9(2):179-194

Fischl, Bruce, Sereno, M.I., Dale, A.M., (1999). Cortical Surface-Based
Analysis II: Inflation, Flattening, and a Surface-Based Coordinate System.
NeuroImage 9(2):195-207

Fischl, Bruce, Liu, Arthur, and Dale, A.M., (2001). Automated Manifold
Surgery: Constructing Geometrically Accurate and Topologically Correct
Models of the Human Cerebral Cortex. IEEE Transactions on Medical Imaging,
20(1):70-80


if you do inter-subject spherical averaging

Fischl, Bruce, Sereno, M.I., Tootell, R.B.H., and Dale, A.M., (1999).
High-resolution inter-subject averaging and a coordinate system for the
cortical surface. Human Brain Mapping, 8:272-284


if you do a thickness study


Fischl, Bruce, and Dale, A.M., (2000). Measuring the Thickness of the Human
Cerebral Cortex from Magnetic Resonance Images. Proceedings of the National
Academy of Sciences, 97:11044-11049.


if you use cortical parcellations


Fischl B, van der Kouwe A, Destrieux C, Halgren E, Ségonne F,
Salat DH, Busa E, Seidman LJ, Goldstein J, Kennedy D, Caviness V, Makris
N, Rosen B, Dale, AM Automatically Parcellating the Human Cerebral
Cortex. Cerebral Cortex, 2004; 14:11-22.

there should be another one here by Desikan and Killiany - I'll have to add it.

if you do subcortical segmentation

Fischl B, Salat DH, van der Kouwe AJW, Makris N, Ségonne F, Dale
AM. Sequence-Independent  Segmentation of Magnetic Resonance Images.
NeuroImage 23 Suppl 1, S69-84.

Fischl B, Salat D, Busa E, Albert M, Dieterich M, Haselgrove C,
van der Kouwe A, Killiany R, Kennedy D, Klaveness S, Montillo A, Makris
N, Rosen B, Dale A.M.. Whole brain segmentation. Automated labeling of
neuroanatomical structures in the human brain. Neuron. 2002; 33(3):
341-355.



misc other ones

F. Segonne, E. Grimson and B. Fischl (2003). Topology Correction of
Subcortical Segmentation", MICCAI 2003.


Salat DH, Buckner RL, Snyder AZ, Greve DN, Desikan RSR, Busa E, Morris JC, Dale AM, Fischl B. Thinning of the cerebral cortex in aging. Cerebral Cortex. Accepted with revision.

On Thu, 18 May 2006, anthony gallo wrote:

Surfers,
Can someone please point me towards some detailed description of the
algorithms that freesurfer uses to process the data.......maybe there are
some papers that talk about  this??
Anthony

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