An intensive 7-week course on the physical basics of MR imaging, the physiology of functional MRI, and the essentials of FMRI data analysis, using 2 popular software packages, FSL and SPM.
Seminar
- History of Neuroimaging | Seminar PDF
- Basic Statistics of FMRI Data Analysis
- MRI Safety Instructions
- MRI Physics (Huettel, Song, McCarthy: Chapters 3-5) | Seminar PDF
- Physiological Basis of FMRI (Huettel, Song, McCarthy: Chapters 6 & 7)
- Signal, Noise, and Preprocessing of FMRI Data (Huettel, Song, McCarthy: Chapter 8)
- Experimental Design (Huettel, Song, McCarthy: Chapter 9)
- Statistical Analyses (Huettel, Song, McCarthy: Chapter 10)
Software Practical FSL
- Introduction to neuroimaging data analysis software, UNIX basics, MR image basics | Practical 1 PDF
- MR image display | Practical 2 PDF
- FMRI preprocessing | Practical 3 PDF
- Head motion, General Linear Model, statistical analysis | Practical 4 PDF
Required Reading
Huettel SA, Song AW & McCarthy G. Functional Magnetic Resonance Imaging. Sinauer 2009 | Table of Contents
Recommended Reading
Jenkinson M & Chappell M. Introduction to Neuroimaging Analysis. Oxford University Press 2018 | Neuroimaging Primers | Book Review
Siemens. Magnets, Spins, and Resonances. An introduction to the basics of Magnetic Resonance. | PDF English | PDF Chinese | PDF French | PDF German | PDF Spanish
Oxford Neuroimaging Primers: Recommended Example Boxes
- MRI artifacts
- Task fMRI data
- Brain extraction
- Troubleshooting brain extraction
- Spatial Transformations
- Registration
- Registration case studies