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So all voxels in the brainmask that are non-zero are in the brain mask? In other words zero-valued voxels in the brain are considered to be non-brain?
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Bruce Fischl Sent: Tuesday, 27 August 2019 12:18 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] binary version of brainmask?
Hi Chris
can't you just use mri_binarize to turn whichever want you want into a binary mask? Or mri_threshold for that matter cheers Bruce On Tue, 27 Aug 2019, Chris Adamson wrote:
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Is it possible to get mri_watershed to produce a binary mask version of brainmask.mgz/brainmask.auto.mgz?
Thank you,
Chris.
Dr Chris Adamson
Senior Research Officer, Developmental Imaging, Clinical Sciences (0.3 EFT)
Software Engineer, Cardiovascular Research (0.7 EFT)
Murdoch Childrens Research Institute
The Royal Children’s Hospital
Flemington Road, Parkville, VIC 3052 Australia
E chris.adamson@mcri.edu.aumailto:chris.adamson@mcri.edu.au
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