Introduction and Open Science
Rik Henson & Olaf Hauk

Websites

OSF
UKRN

Suggested reading

Poldrack et al, 2017, NRN
https://www.ukrn.org/primers/
Munafo et al, 2017, NHB

Suggested viewing

Comedian's Perspective
PayWall

Structural MRI
Marta Correia

Software

FSL Freesurfer

Datasets

Suggested reading

Suggested viewing

Using the command line

Diffusion MRI I
Marta Correia

Software

Datasets

Suggested reading

Suggested viewing

Diffusion MRI II
Marta Correia

Software

Datasets

Suggested reading

Suggested viewing

fMRI I
Dace Apšvalka

Software

Datasets

Suggested reading

Suggested viewing

fMRI II
Dace Apšvalka

Software

Datasets

Suggested reading

Suggested viewing

fMRI III
Dace Apšvalka

Software

Datasets

Suggested reading

Suggested viewing

fMRI IV
Dace Apšvalka

Software

Datasets

Suggested reading

Suggested viewing

Connectivity for fMRI
Rik Henson

Software

SPM12

Datasets

Wakeman Multimodal

Suggested reading

Resting-state functional Connectivity
Simple Intro to DCM
fMRI preprocessing in SPM12 (for demo)
SPM12 manual (Chapter 36)

Suggested viewing

fMRI Functional Connectivity, including DCM

Eye-tracking
Edwin Dalmijer

Software

Datasets

Suggested reading

Suggested viewing

EEG/MEG I – Pre-processing
Olaf Hauk

Software

MNE-Pythonneuro

Datasets

Sample dataset in MNE-Python. Tutorials

Suggested reading

Digitial Filtering
Filtering How To
Maxwell Filtering

Suggested viewing

Preprocessing
What are we measuring with M/EEG?

EEG/MEG II – Source Estimation
Olaf Hauk

Software

MNE-Python

Datasets

Sample dataset in MNE-Python. Tutorials

Suggested reading

Linear source estimation and spatial resolution

Suggested viewing

M/EEG Source Analysis in SPM

EEG/MEG III – Time-Frequency and Functional Connectivity
Olaf Hauk

Software

MNE-Python

Datasets

Sample dataset in MNE-Python. Tutorials

Suggested reading

Tutorial on Functional Connectivity
Analyzing Neural Time Series Data

Suggested viewing

Time-frequency and functional connectivity analysis
Time-Frequency Analysis of EEG Time Series

Graph Theory
Caroline Nettekoven

Software

Brain Connectivity Toolbox in Matlab

Datasets

Coding exercises
Exercise solutions

Suggested reading

Complex brain networks: graph theoretical analysis of structural and functional systems

Suggested viewing

Slides

MVPA/RSA I
Daniel Mitchell

Software

The Decoding Toolbox in Matlab

Datasets

The Decoding Toolbox example dataset
(See toolbox webpage for a lower resolution alternative)

Suggested reading

Mur et al. (2009) Revealing representational content with pattern-information fMRI--an introductory guide
Hebart et al. (2014) The Decoding Toolbox (TDT): a versatile software package for multivariate analyses of functional imaging data

Suggested viewing

Excellent presentations from Martin Hebart's MVPA course, on:
Introduction to MVPA
Introduction to classification

MVPA/RSA II
Daniel Mitchell

Software

The RSA toolbox in Matlab
(Alternatively, https://git.fmrib.ox.ac.uk/hnili/rsa)

Datasets

Suggested reading

Kriegeskorte et al. (2008) Representational similarity analysis - connecting the branches of systems neuroscience
Kriegeskorte & Kievit (2013) Representational geometry: integrating cognition, computation, and the brain
Nili et al. (2014) A toolbox for representational similarity analysis

Suggested viewing

Martin Hebart's lecture on RSA

Statistics in R
Peter Watson

Software

R

Datasets

Data&Code Readme

Suggested reading

Statistical Methods for Psychology (Howell)
Introduction to R

Suggested viewing

CBU Statistics Lectures

Brain Stimulation
Ajay Halai

Software

Datasets

Suggested reading

Suggested viewing

DCM for M/EEG
Rik Henson

Software

SPM12

Datasets

Wakeman Multimodal

Suggested reading

Preprocessing M/EEG in SPM12
Simple Intro to DCM

Suggested viewing

DCM for MEEG evoked responses
MEEG connectivity other than DCM (not demo'ed, and related to Hauk talks above)