For the missing insula problem, try using a newer version of mri_label2vol ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_label2vol
The 2nd problem is not so easy to fix. You might be better off using aparc+aseg.mgz as input to mri_label2vol instead of the surface annotation. doug
On 12/3/12 10:35 AM, José Ángel Pineda wrote:
Dear experts,
I am registering cortical labels from Talairach coordinates to my native T1. For doing this, I have run the next script lines:
tkregister --targ brainmask.mgz --mov highres_brain.nii.gz --reg T1FS2Highres.dat --regheader --noedit
mri_label2vol --annot rh.aparc.annot --temp highres_brain.nii.gz --reg T1FS2Highres.dat --o rh_aparc.nii.gz --hemi rh --subject FS --proj frac 0 1 .1 --fillthresh .3
and the same for the left hemi.
However I am finding two problems at the result. First Insula is missing for both hemispheres, and second the cortical ROIs have the shape of the figure attached, e.g. there are many voxels empty
Imágenes integradas 1
I found in previous topics, that the mri_label2vol, was updated as it left last volume from the list out of the conversion. I tried to download it, but it is just compiled for linux, and since Im working with mac I am not able to run it. Could you please give me any comments to solve the problem with the missing voxels. About the problem with the insula, the other option is to just extract it with mri_annotation2label, but if I could get the mri_label2vol working correctly it would be better.
Thanks a lot
Jose
--
José Angel Pineda Pardo
Center of Biomedical Technology (CTB)
Parque Científico y Tecnológico de la UPM
Campus de Montegancedo
28223 Pozuelo de Alarcón, Madrid, ES
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