Useful information to consider before and while doing a (f)MRI study
How to set up and run experiments in the MRI lab: peripherals, displays, KVM switch, trigger box, PsychoPy and Psychtoolbox
Work through the steps in order. Start with the overview, and check troubleshooting when something goes wrong.
Overview about how to get from DICOM files from the Scanner to your GLM Analysis
Step by step description of how to get from DICOM files to necessary nifti-files in BIDS format
Description of how to check and potentially update the fmap’s JSON file
Information about how to provide participants with their T1w image
Step by step description of how to deface your data
Step by step description of how to remove the denoising scan from your data
Step by step description of how to run fMRIprep
Procedure to apply the probabilistic retinotopic mapping using the Benson Atlas
Several approaches to run a first level GLM using nilearn
Example of ROI Analysis
Collection of known potential problems and their solutions
Interactive 3D viewer of the left and right hemisphere segmentation
Approach to generate dilated and shifted control masks
How to use 3D Slicer to calculate oriented bounding box
information about various MNI spaces and templates
How to run 7 Tesla anatomy analysis on neurodesk
current procedure for 3d printing brains
Information about using fMRIprep to preprocess fMRI data
Information about BIDS and OSF
Creating physiology regressors using the PhysIO toolbox