Introduction to Resting-State fMRI Analysis

by Dr Matt Wall

About the course

Resting-state fMRI (RS-fMRI) is a powerful and popular method for examining brain function and is widely used in examining mental disorders, pharmacological agents, and many other types of studies. Resting-state data is a potentially rich source of information and the analysis techniques used can be extremely varied and flexible. This session covers some theory and background about RS-fMRI and a demonstration of two popular analysis methods: seed-based functional connectivity and Independent Components Analysis (ICA), using FSL.

About the speaker

Dr Matt Wall completed his PhD in Cambridge, then did post-doctoral positions at Royal Holloway and UCL before selling out and moving into the private sector. He currently works for Invicro, a global imaging company that provides research services for the pharmaceutical and biotechnology industries. His research interests have meandered around somewhat, taking in cognitive psychology, visual psychophysics, pain, psychopharmacology, psychedelics, addiction, neuroendocrinology, and methods development, but all focussed around the use of fMRI. His current collaborative projects involve giving teenagers cannabis and showing women pornography, as well as a number of commercial studies, and ongoing methodological work.

Further Resources

Course slides:

Click here!


Oxford Neuroimaging Primer on Resting-State fMRI Functional Connectivity


Cole, D. M., Smith, S. M., & Beckmann, C. F. (2010). Advances and pitfalls in the analysis and interpretation of resting-state fMRI data. Frontiers in Systems Neuroscience, 4, 8.

Fox, M. D., & Raichle, M. E. (2007). Spontaneous fluctuations in brain activity observed with functional magnetic resonance imaging. Nature Reviews Neuroscience, 8(9), 700-711.

Griffanti, L., Douaud, G., Bijsterbosch, J., Evangelisti, S., Alfaro-Almagro, F., Glasser, M. F., … & Smith, S. M. (2017). Hand classification of fMRI ICA noise components. NeuroImage, 154, 188-205.

Murphy, K., Birn, R. M., & Bandettini, P. A. (2013). Resting-state fMRI confounds and cleanup. NeuroImage, 80, 349-359.

Additional courses and tutorials:

FSL course – includes all materials, sample data, practical exercises, and course videos.

Matt’s Twitter: