Hello Freesurfer Experts,
I was wondering if someone can help me understand which options I need to include with mri_vol2surf for the following situation?
I am trying to take group stats generated within FEAT that are in MNI152_2mm space and registrar/project those to fsaverage inflated surface.
When I tried a quick visualization using just tksurfer and overlaying my MNI space vol images, there seemed to be anatomical/registration differences between where each space displayed the stats.
I then attempted to use mri_vol2surf (command below) in hopes of better aligning these two spaces, but the statistical intensity values have been lost and I am not confident that this command worked in the way I thought it might/would like it to.
I am not sure which flags/options may be best in this situation, but any insight you may have is greatly appreciated!
Command used: mri_vol2surf --mov /.../tstat2.nii.gz --ref /.../MNI152_T1_2mm_brain.nii.gz --reg fsaverage --mni152reg --hemi rh --surf white --o /.../stats/
Is part of my problem that I have not specified a particular --out_type?
Terminal Output: srcvol = /autofs/cluster/ablood/1/jacob/FSL_FEAT_and_MORE/results/groups/BETman_111/12Cv12P_L_tapACT.gfeat/cope1.feat/stats/tstat2.nii.gz srcreg = /usr/local/freesurfer/stable5_3_0/average/mni152.register.dat srcregold = 0 srcwarp unspecified surf = white hemi = rh reshape = 0 interp = nearest float2int = round GetProjMax = 0 INFO: float2int code = 0 Done loading volume WARNING: the voxel resolution in the source volume (2,2,2) differs from that listed in the registration file (1,1,1) Reading surface /space/sake/3/users/inverse/subjects/fsaverage/surf/rh.white Done reading source surface Mapping Source Volume onto Source Subject Surface 1 0 0 0 using old Done mapping volume to surface Number of source voxels hit = 21216 Writing to /autofs/cluster/ablood/1/jacob/FSL_FEAT_and_MORE/results/groups/BETman_111/12Cv12P_L_tapACT.gfeat/cope1.feat/stats/ Dim: 163842 1 1 non-standard value for imnr1 (1, usually 256) in volume structure non-standard value for type (3, usually 0) in volume structure non-standard value for width (163842, usually 256) in volume structure non-standard value for height (1, usually 256) in volume structure
Outputed files: COR-001 COR-.info
Command used for viewing:
tksurfer fsaverage rh white -overlay COR-001
Thank you for the help,
Jacob