Re: [Freesurfer] Subcortical Choi 17 networks ROIs

Hi Mario, can you tell me more about what you are trying to do? doug

On 05/08/2013 01:03 PM, Mario Ortega wrote:

This does not seem to work well, as the 7_Networks seg file and template is in MNI152 space, is there a method to back transform the striatal segmentations to 1.) first MNI305 space. 2.) native subject space. I found mni152reg to transform the subject to 152 space, but I need the Choi 7 networks into mni205, then native... I will keep trying unless there is another way I am missing.

On Wed, May 8, 2013 at 9:45 AM, Mario Ortega <mario.ortega@gmail.com mailto:mario.ortega@gmail.com> wrote:

HI Everyone,
I have a question about how to "write out" ROIs for these networks.
I realize I can transform the mni template and Masks using
mri_vol2vol to create a new "aseg_choi-17" file.
But in order to do stats or use them as regions of interest in
FSfast, they need to be included in the
defaiult FreeSurferColorLUT.txt?
 So should I overwrite the first 17 seg ids? or can I use a custom
(CHOI_7 netwroks Look upTable?
Im using FS5.1, as I would imagine FS5.2 may already do these by
default, but there are bugs in that version from what I
understand. I want to recreate the subcortically defined regions
to the cortical functional scan.
Thanks,
Mario

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