Re: [Freesurfer] cortex mask

[Bruce Fischl]

mri_vol2vol on the ribbon.mgz should do the trick. Use bbregister to 
register the T2 to the surfaces


cheers
Bruce

On Sat, 27 Feb 2016, Ali Radaideh wrote:


Dear FreeSurfer Experts,

We have two high resolution datasets (T1 and T2* images). T2* is
co-registered to the T1 volume. The T1 volume was processed in freesurfer
using the recon-all and we want to use the segmented cortex (by freesurfer)
as a mask to extract the cortex from the T2* volume.

Would it be possible, please, to let us know which command to use to
transfer the segmented cortex to the native space of T1 and T2*?. 

Many thanks in advance,
Ali

--
Ali M. Al-Radaideh. PhD
Head of Department of Medical Imaging
Vice Dean of the Faculty of Allied Health Sciences
The Hashemite University, 
Zarqa, Jordan
W.phone +962 5 390 ext.5422, 5355, 5364
Email: ali.radai...@hu.edu.jo
webpage: http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=


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[Freesurfer] cortex mask

[Ali Radaideh]

Dear FreeSurfer Experts,

We have two high resolution datasets (T1 and T2* images). T2* is
co-registered to the T1 volume. The T1 volume was processed in freesurfer
using the recon-all and we want to use the segmented cortex (by freesurfer)
as a mask to extract the cortex from the T2* volume.

Would it be possible, please, to let us know which command to use to
transfer the segmented cortex to the native space of T1 and T2*?.

Many thanks in advance,
Ali

-- 







*Ali M. Al-Radaideh. PhDHead of Department of Medical ImagingVice Dean of
the Faculty of Allied Health SciencesThe Hashemite University, Zarqa,
JordanW.phone +962 5 390 ext.5422, 5355, 5364Email:
ali.radai...@hu.edu.jo *
*webpage: http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=
*
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The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.