what's your mri_label2label command?
On 7/10/2020 3:05 PM, Sam W wrote:
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Hi Doug and Tim,
I'm running probtrackx with freesurfer surfaces as seeds. However
probtrackx requires a file that contains both the whole surface file
(eg, lh.pial) as well as the overlay (the scalar values associated
with the vertices of the roi).
I can create such a file with FSL's label2surf command which creates a
gifti file that encodes both the surface and the overlay.
My question is whether I can do the same with freesurfer? Running
probtrackx with the overlay from mri_label2label --outmask does not
work. It also needs the associated pial or white surface.
Best regards,
Sam
On Fri, Jul 10, 2020 at 4:29 PM Douglas N. Greve
<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote:
what do you mean merge with the pial?
On 7/9/2020 8:07 PM, Sam W wrote:
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It works great Doug, thanks a lot!
Can I ask you a follow up question please? I created the overlay
with mri_label2label using --outmask as you suggested, but now
I'd like to merge that overlay with the pial surface (lh.pial).
Is there a tool I can use to achieve that result?
Best regards,
Sam
On Thu, Jul 9, 2020 at 7:31 PM Douglas N. Greve
<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote:
Use mri_label2label with the --outmask option
On 7/8/2020 10:14 PM, Sam W wrote:
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Hi,
Is there a way to convert a label file into a
surface/overlay? Thank you!
Best regards,
Sam
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