Hi Stuart
We routinely segment the brainstem as one of 83 regions with an
automatic multi-atlas procedure (MAPER, www.soundray.org/maper), using
the Hammers atlas (www.brain-development.org; Resources - Atlases -
Adult). It's fairly CPU-intensive, but for the brainstem we get
Jaccard overlaps of 0.88 (Dice index 0.94) with manual reference
segmentations.
Feel free to email me if you'd like to try this out.
Regards
Rolf
On 3 May 2012 09:38, Stuart Currie <[log in to unmask]> wrote:
> Good morning FSL team,
>
> We have been comparing brain stem volumes in two patient groups and have used FIRST with the BrStem_bin.bmv command. This provides good volume data for both the brainstem + 4th ventricle.
>
> My question is whether there is a way of obtaining the brainstem volume without the 4th ventricle included?
>
> Many thanks
>
> Stuart
--
Rolf A Heckemann, MD PhD
Médecin chercheur
Fondation Neurodis
CERMEP - Imagerie du Vivant
Hôpital Neurologique Pierre Wertheimer
59 Boulevard Pinel
69003 Lyon
France
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