[MINC-users] ANIMAL

[Steve ROBBINS]

On Fri, Aug 06, 2004 at 10:50:46AM -0400, haytham@umich.edu wrote:
> This is a message I sent earlier but did not get any responses. Please help:
> 
> I am trying to follow the procedure to automatically segment and label the
> volume that is described in Dr. Collins paper titled "ANIMAL+INSECT: Improved
> Cortical Structure Segmentation." I was able to do the following steps:
> 
> 1. Linear Registration (MRI to Stereotaxic Space) (mritotal)
> 2. Image Intensity Non-Uniformity Correction (N3 Package)
> 3. Nonlinear Registration With Average Brain Target (with nlfit/animal)
> 4. Identify Grey Matter, White Matter and CSF Voxels (classify package)
> 
> The last step (5) of the procedure is to take the output of the linear and
> non-linear registration and combine the classified data to achieve a
> segmentation. Ok, I know stx_segment accomplishes this last crutial step. Where
> is this script located? I downloaded and installed all the software avaialble
> from http://www.bic.mni.mcgill.ca/software/distribution/ and I can not find the
> script.

I believe that you need to contact L.Collins directly for it.

> On more thing that I dont understand:
> Animal stands for Automatic Nonlinear Image Matching and Anatomical Labeling.
> The animal package that is available to download (to my knowledge) includes
> only the "Automatic Nonlinear Image Matching" part. Where are the "Anatomical
> Labeling" routines? 

That is what "stx_segment" does.

-Steve