Fiasco
Functional Image Analysis - Computational Olio, plus the Functional Image Analysis Toolkit (FIAT)
FIAT provides a flexible set of tools for manipulating n-dimensional arrays of data on disk. Fiasco is a set of scripts which use those tools to analyze functional brain imaging data, based on the FIAT tools.
See the on-line documentation.
Citations
The algorithms in FIASCO and its included packages are described in a number of technical references, and it is good policy to cite these references in publications which rely on these codes. Some relevant references are:
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For FIASCO itself:
Lazar, N.A., Eddy, W.F., Genovese, C.R., and Welling, J., 2001. Statistical Issues in fMRI for Brain Imaging. International Statistical Review, 69, 1, 105-127.
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For FIASCO methods involving group comparisons:
Lazar, N.A., Luna, B., Sweeney, J.A., and Eddy, W.F., 2002. Combining Brains: A Survey of Methods for Statistical Pooling of Information. NeuroImage, 16, 538-550.
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For FIASCO methods involving motion correction:
William F. Eddy, Mark Fitzgerald, Douglas C. Noll (1996). Improved Image Registration by Using Fourier Interpolation, Magnetic Resonance in Medicine, 36.6, 923-931
William F. Eddy and Terence K. Young (2000). Optimizing the Resampling of Registered Images, Handbook of Medical Image Processing, Processing and Analysis, (I.N. Bankman, Ed.), Academic Press, 603-612.
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For the AAL atlas included with FIASCO:
Tzourio-Mazoyer N et al. Automated anatomical labelling of activations in spm using a macroscopic anatomical parcellation of the MNI MRI single subject brain. Neuroimage 2002; 15: 273-289.
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Sources for the algorithms used in the DCDFLIB library are given in the file src/libdcdf/README .