Hi Rana,

The samseg tool in FreeSurfer will segment some non-brain tissues. If that's not sufficient for your needs, you can also check out a more specialized version of samseg distributed with the new/upcoming version of SimNIBS -- cf. MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.sciencedirect.com/science/article/pii/S1053811920305309 for details.

Hope this helps,

Koen

On Wed, Sep 29, 2021 at 3:09 PM Banik, Rana <rana.banik@vanderbilt.edu> wrote:

External Email - Use Caution

Hello All,

I am a beginner in freesurfer. Was looking for resources to perform volumetric segmentation(not surface mesh) for non-brain tissues like Muscle-skin, fat from T1-w MR images.

Is that feature available in freesurfer? I have used FSL for WM, GM, CSF segmentation.

Also looking to protect the inter-subject variability without registering the head volumes to MNI or another atlas.

-Rana

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer