[MINC-users] Total Intercranial Volume (TIV) in the minc toolchain?

[Simon Eskildsen]

Hi Gabriel,

It depends on how you define TIV.

If you aim for separating at the inner skull boundary, this is extremely
difficult using "normal" MPRAGE. That is why MEG/EEG/TMS folks use multiple
sequences (T1, T2, FLASH) to generate their boundary element models used
for solving the inverse problem. See for example
http://simnibs.de/version2/mri_sequences

However, if you "just" want brain + CSF, that is possible using normal
MPRAGE only. One way would be to generate a BEaST library with proper TIV
masks. You may also achieve usable masks using surface based tools such as
FSL BET or Freesurfer (did I just say that?!).

I think many would be interested in a library of accurate TIV masks :-)

Simon

On Tue, Sep 15, 2015 at 6:01 PM, Gabriel A. Devenyi <gdevenyi at gmail.com>
wrote:

> Hi all,
>
> I know I can get total brain volume (TBV) with BeAST with excellent
> results, but for some groups I think it would be more appropriate to use
> TIV to describe the subject.
>
> Does anyone know of a tool/set of commands in minc to achieve this? My
> first thought was to use the inverse BeAST mask to remove the brain and
> then use some kind of fill-in mask based on the intensity in the empty
> space.
>
> --
> Gabriel A. Devenyi B.Eng. Ph.D.
> Research Computing Associate
> Computational Brain Anatomy Laboratory
> Cerebral Imaging Center
> Douglas Mental Health University Institute
> McGill University
> t: 514.761.6131x4781
> e: gdevenyi at gmail.com
> _______________________________________________
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>