Anything that is non-0 will cover the whole brain. doug
Sudhin A. Shah wrote:
Hi, thank you. Is there a range in the labels that will ensure that I am including the whole brain? I.e. I see labels for Cx, but not subcortical.. If I take labels 1001 to 2001 ( for eg ) will that cover whole brain?
Thank you, S
On Jun 13, 2011, at 10:59 AM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
That is fine, or you can use mri_binarize with the --match option. The numbers that correspond to each label can be found in $FREESURFER_HOME/FreeSurferColorLUT.txt. You can also get at them visual as I described in my previous email with tkmedit:
tkmedit subject orig.mgz -aux aseg.mgz -aseg
doug
Sudhin A. Shah wrote:
I mean that I am using FSL to create binary masks from freesurfer parcellated regions. Unless there is a better way :)
S
On Jun 10, 2011, at 7:13 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
What do you mean you are doing it with FEAT?
Sudhin A. Shah wrote:
Hello,
I am a beginner so please bear with me. I want to obtain binary masks for every region (Cortical + subcortical). I am using FSL(feat) to do this BUT am not sure what the labels would be.
I have looked at FreeSurferColorLUT.txt for aparc+aseg-in-highres.mgz BUT do not know which labels to use to avoid overlap and ensure full coverage.
Thank you,
S
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