Complete Books

Neuroimaging Primers

Oxford Neuroimaging Primers are a set of short, accessible textbooks focused on MRI-based neuroimaging research, published by Oxford University Press.

Introduction to Neuroimaging Analysis

Mark Jenkinson, Michael Chappell

This primer gives a general and accessible introduction to the wide array of MRI-based neuroimaging methods that are used in research. Supplemented with online datasets and examples to enable the reader to obtain hands-on experience working with real data, it provides a practical and approachable introduction for those new to the neuroimaging field. The text also covers the fundamentals of what different MRI modalities measure, what artifacts commonly occur, the essentials of the analysis, and common ‘pipelines’ including brain extraction, registration and segmentation.

Introduction to Perfusion Quantification using Arterial Spin Labelling

Michael Chappell, Thomas Okell, Brad Macintosh

The aim of this primer is to equip someone new to the field of perfusion imaging and ASL with the knowledge not only to make good choices about ASL acquisition and analysis, but also to understand what choices they are making and why. Examples of analysis applied to real data are given throughout the text and instructions on how to reproduce the analyses are illustrated on the primer website.

Introduction to Resting State fMRI Functional Connectivity

Janine Bijsterbosch, Stephen Smith, Christian Beckmann

From data acquisition to interpretation of results, Introduction to Resting State fMRI Functional Connectivity discusses a wide range of approaches without requiring any previous knowledge of resting state fMRI, making it highly accessible to readers from a broad range of backgrounds.

Physiology for Engineers series

Physiology for Engineers

Michael Chappell, Stephen Payne

An introduction to qualitative and quantitative aspects of human physiology using mathematical principles and engineering methods that will be familiar to engineers and other physical scientists.

Principles of Medical Imaging for Engineers

Michael Chappell

An introduction to the principles of medical imaging that underpin all of the major medical imaging methods. By first considering how to get signals from within the body, and then how to turn these into images, this book shows how mathematical and physics principles work in the context of medical imaging.
Book review in Optics and Photonics News (August 2020)

Book chapters

Variational Bayes

In Brain Mapping (pp. 523–533). Elsevier

M.A Chappell & M.W. Woolrich


Bayesian Model Inversion

In Brain Mapping(pp. 509-516). Elsevier

M.W. Woolrich & M.A. Chappell


An Introduction to Brain Tumor Imaging

In Tumors of the Central Nervous System (11th ed.). Springer.

A. Mehndiratta, Y.K. Tee, S.J. Payne, M.A. Chappell, & F.L. Giesel.


Brain Tumour Imaging: Developing Techniques and Future Perspectives

In Atlas of Clinical Cases on Brain Tumor Imaging (pp81-91) Springer 2020

P. L Croal


Technical Reports

The FMRIB Variational Bayes Tutorial

Variational Bayesian inference for a non-linear forward model

Chappell MA, Groves A, Woolrich MW

PDF document

The FMRIB Variational Bayes Tutorial II: Stochastic Variational Bayes

Stochastic Variational Bayes

Chappell MA, Woolrich MW

PDF document

Stochastic Variational Bayesian inference for a non-linear forward model

Stochastic Variational Bayesian inference for a non-linear forward model

Chappell MA, Craig MS, Woolrich MW

PDF document