Preclinical approach

Manual steps for VBM, T2 map, DTI image sets

1. Convert data

1. Put into folders

1. Line up images to anterior commisure

The automated steps

VBM

1. Segment and normalise using the batch I emailed

1. Smooth

T2 map

1. Create t2 map

1. Segment and normalise using the batch I emailed. Maybe use first T2 image of t2 map to create normalisation parameters?

1. Smooth

DTI

1. Create MD, FA etc maps

1. Segment and normalise using the batch I emailed and using the b0 image

1. Apply normalisation parameters to M