fMRI Methods Chapters
Wager, T. D., Hernandez, L., Jonides, J., & Lindquist, M. (2007). Elements of functional neuroimaging. In J. T. Cacioppo, L. G. Tassinary & G. G. Berntson (Eds.), Handbook of Psychophysiology (4th ed., pp. 19-55). Cambridge: Cambridge University Press.
Geuter, S., Lindquist, M. A., Wager, T. D. (2017) Fundamentals of Functional Neuroimaging. In: Handbook of Psychophysiology, 4th ed. (Cacioppo JT, Tassinary LG, Berntson GG, eds), pp 41–73. Cambridge: Cambridge University Press.
fMRI Tools Documentation
This page contains links to help documents for the SCAN lab analysis tools. The software can be found here: Link to Software
More help on fMRI (quality control, artifacts, SPM, preprocessing, analysis) is available in the “help” section in the menu at the left. See the bottom of this page for a partial list.
Helpful pages with how-to's
figure_gallery How to make nice figures
brain_masks How to use brain masks
object_oriented_fmri Here is a list of the most important tools
to-be-added: - how to extract data
Available CAN lab fMRI toolboxes:
CAN Core Tools Visualization, plotting, statistics, image manipulation
M3 Mediation fMRI Toolbox Multilevel mediation and moderation for fMRI data
robust_regression Robust regression toolbox for group fMRI analysis
Genetic Algorithm for fMRI Genetic algorithm for optimized fMRI design
Meta Analysis MKDA Coordinate-based meta-analysis with Multilevel Kernel Density Analysis
HEWMA Hierarchical Exponentially Weighted Moving Average analysis for fMRI
HRF fMRI hemodynamic response fitting toolbox
diagnostics fMRI diagnostic tools and effect size maps
General help pages and examples:
- “Cluster” is the (older, but still very useful) structure that is used to store fMRI data. “Region” is the newer, object-oriented version of cluster.
- Anytime you add documentation, use the format defined in trunk/SCN_Core_Support/Misc_utilities/documentation_template.m