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The GCA Subcortical Segmentation Atlas Volume Format
WORK IN PROGRESS
The .gca (Gaussian Classifier Atlas) file format encodes voxel label information based on probabilistic information estimated from a training set. The GCA format is proprietary, defined by the NMR Center (at Massachusetts General Hospital). Below is an informal specification of the format, extracted from the code snippets below:
- attachment:gca.h
- attachment:gca.c
- attachment:load_gca.m
References
[https://surfer.nmr.mgh.harvard.edu/ftp/articles/fischl02-labeling.pdf Whole Brain Segmentation: Automated Labeling of Neuroanatomical Structures in the Human Brain], Fischl, B., D.H. Salat, E. Busa, M. Albert, M. Dieterich, C. Haselgrove, A. van der Kouwe, R. Killiany, D. Kennedy, S. Klaveness, A. Montillo, N. Makris, B. Rosen, and A.M. Dale, (2002). Neuron, 33:341-355.
[http://www.nmr.mgh.harvard.edu/~fischl/reprints/sequence_independent_segmentation_reprint.pdf Sequence-Independent Segmentation of Magnetic Resonance Images], Fischl, B., Salat, D.H., van der Kouwe, A.J.W., Makris, N., Ségonne, F., and Dale, A.M. (2004) NeuroImage 23:S69-S84.
[https://surfer.nmr.mgh.harvard.edu/ftp/articles/AtlasSeg_TMI2007April.pdf Atlas Renormalization for Improved Brain MR Image Segmentation Across Scanner Platforms], Han, X. and B. Fischl, (2007). IEEE Transactions on Medical Imaging, 26(4):479-486.