Thanks Matt!

Valerie Anderson

BSc(Hons), PhD

Post-doctoral Researcher

School of Pharmacy

Faculty of Medical & Health Sciences

The University of Auckland

Private Bag 92019

Auckland

New Zealand

Tel: +64 (0)9 373 7599 Ext. 81914

From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Matt Glasser
Sent: Thursday, 20 January 2011 5:22 p.m.
To: [log in to unmask]
Subject: Re: [FSL] DTI processing - additional b0 images

You should definitely concatenate them and eddy correct the 4D dataset. Splitting and averaging the b0s is not necessary though.

Peace,

Matt.

From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Valerie Anderson
Sent: Wednesday, January 19, 2011 9:54 PM
To: [log in to unmask]
Subject: [FSL] DTI processing - additional b0 images

Hi,

I’m acquiring a 64-direction DTI sequence that acquires only 1 b0 image, so have added an additional scan with extra b0s as was suggested in a previous post:

https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=FSL;1d112f11.0806

I’ve been unable to find any posts relating to how to incorporate these images, but based on the normal pre-processing of multiple DTI acquisitions I’ve come up with the following:

- Concatenate the extra b0 images with the 64-direction DTI sequence using fslmerge

- Eddy correct this 4D data set

- Split the b0 images from the corrected data set using fslroi

- Average the b0 images

- Add the average b0 image back to the corrected data set using fslmerge.

Could anyone confirm that this is correct, or put me on the right track if not please?

Thanks,

Valerie