First, you should look at your ROI in fsaverage space to see if it overlaps at all, eg, tkmedit fsaverage orig.mgz -ov ROI.mgh -fminmax .5 1 -surfs If the surface does not intersect, then none of this will work. If it does not intersect, then you will need to register the ROI to fsaverage (or run recon-all on an MNI brain)
On 04/28/2016 01:04 PM, Sahil Bajaj wrote:
Dear FreeSurfer experts,
I have a surface ROI defined in MNI co-ordinate system, ROI.mgh, I am interested in converting it into label. I tried following steps: (1). mri_cor2label --i ROI.mgz --id 1 --l X.label (2). mri_label2label --srclabel X.label --s fsaverage --trglabel Xnew.label --hemi lh --paint 30
This gives me final .label file as Xnew.label, then I tried to check if this is correct using: (3). tksurfer fsaverage lh inflated -overlay ROI.mgh -fthresh 0.5 and then on top of it File>load label>Xnew.label
Now the new Xnew.label is not matching with ROI.mgz. Can someone please help me to figure out what I am doing wrong here? Also, how can I view the label in FreeView i.e. is there any way to load this new label just like LookUp Table?
Thanks, Sahil
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Sahil Bajaj Post-doctoral Fellow Nantz National Alzheimer's Center, Department of Neurology The Houston Methodist Research Institute (THMRI) Houston, TX, USA. E-mail:sahil.brain@gmail.com mailto:E-mail%3Asahil.phy@gmail.com
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