[Freesurfer] ExploreDTI Workshop!

[Szabolcs David]

Thrilled to announce that we are going to hold an ExploreDTI workshop in
Utrecht (July 4-6)! More details can be found here:
http://www.exploredti.com/workshop.

We hope to see you there!

Cheers,
Szabolcs
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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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[Freesurfer] Very urgent matlab command line to transform vol to label.

[stdp82]

Hi list,I have read on your mail list that I could use the command line 
reported below to covert vol to label.I'm confused on the matlab command 
line.Specifically, if I using an MRS voxel (in native space or MNI, as 
preferred) located bilaterally of 3.0x3.0x3.0 mm, which are lindex, lxyz, ovals?
v = load_mgh('file_created_by_vol_2_surf.mgz');
ind = find(v > threshold);
write_label(ind-1, [], v(ind), 'label_file_want_to_create');
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[Freesurfer] Announcing the Copenhagen FreeSurfer Course 2016

[Melanie Ganz]

​​We are pleased to announce a European FreeSurfer Course that will be held 
from August 10th to 12th, 2016 in Copenhagen, Denmark. The course will be 
organized by the Neurobiology Research Unit, Copenhagen University 
Hospital in cooperation with the Laboratory for Computational Neuroimaging 
of the Athinoula A. Martinos Center for Biomedical Imaging.

Registration will open on March 15th, however, you can put your name on 
our list of students now by emailing the course organizers at 
fs-...@nru.dk!

You will still have to do a formal registration later when they are ready 
to accept payments on March 15th, however, you can reserve your spot in 
the course before then by emailing them.

For upcoming news and further information, please visit: 
http://fscph2016.nru.dk/ or contact us under fs-...@nru.dk.

--
Organizing Team
FreeSurfer Course Copenhagen 2016
http://fscph2016.nru.dk/ 
fs-...@nru.dk
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