Brain MRI pipelines

BrainMRIpipelines (BMP) record how I process neuroimaging data at Centre for Healthy Brain Ageing (CHeBA), University of New South Wales. The purposes are to allow future replication of results, and educate new PhD students. Also, the processing steps and some tips and tricks can be generalised to other datasets.

This document is maintained by Dr Jiyang Jiang.

Modules

• Input/output module
• Arterial spin labelling
• Diffusion-weighted imaging
• Resting-state BOLD imaging
• Cerebrovascular reactivity
• Dynamic Contrast Enhanced MRI
• Miscellaneous tips
• Example code
• Terminologies in Siemens imaging data
• Using GADI and KATANA

Public datasets

• Human Connectome Project - Aging