Hi,
You can take the segmentation images from SIENAX and mask them with a transformed single hemisphere mask (from standard space), and then recalculate the brain volume. It is easy to create a single hemisphere mask in the standard space using fslroi (as x=0 is the midplane) and then use fnirt to register the image to standard space and invwarp to create the warp that will take you from standard space back to the structural space.
All the best,
Mark
On 29 May 2013, at 17:56, Bailey Komishke <[log in to unmask]> wrote:
> Hi FSLers,
>
> I am a summer student at the University of Calgary doing research on Multiple Sclerosis. I am doing a lot of quantitative MRI analysis, and have been using FSL over the past few weeks, but I am still rather new to it.
>
> Is there a way to calculate TBV of each cerebral hemisphere from a T1 scan (all of the parameters I can get from SIENAX, but for each respective hemisphere)? I really appreciate your help
>
> Regards,
>
> Bailey Komishke
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