[MINC-users] Best plane (axial or coronal) for CIVET processing?

[Nam, Kie Woo]

Dear experts,

I know this mailing list is not particularly for CIVET pipeline, but could someone please advise me the best plane (axial or coronal) for images to be in for CIVET processing?

I've recently run CIVET on an image in coronal and axial planes (i.e. 2 identical images just in different planes), and noticed that the outputs differed. This was noticeable in the "clasp" images as well as the text files (example shown below).

...brainmask_qc.txt

Axial image: native skull mask in stx space (10.83%)

Coronal image: native skull mask in stx space (11.96%)

My original images were in coronal plane, so I'm thinking of doing CIVET processing on coronal images. However, I'm not convinced whether this is a good choice. So, if anyone would please advise me on this, I would much appreciate it.

Best wishes,

Kie Woo

Kie Woo Nam
Postgraduate Research Student
Division of Psychological Medicine
Department of Psychosis Studies
Institute of Psychiatry, King’s College London
De Crespigny Park, Denmark Hill
London SE5 8AF, UK
Tel: +44 (0)20 7848 0061