oh, that's going to be tough. I guess you could extract the WM and use it to create our wm.mgz and go from there

On Wed, 8 May 2013, Shani Ben Amitay wrote:

Segmentation into white matter gray matter and CSF of a rat brainCan you give me brief directions-where to

start from?

Thanks!

Shani


On Wed, May 8, 2013 at 3:46 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
      Hi Shani

      what kind of segmentation? In general yes, but you'll need to mess with the recon-all script

      cheers
      Bruce
      On Wed, 8 May 2013, Shani Ben Amitay wrote:

            Hello Freesurfer
            I would like to extract the stream for surface-based analysis on the output of an
            in-house segmentation
            process.Is this possible?How?

            Thanks

            Shani




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