Hi folks,

Has anyone had experience writing out a sulcal ROI from Brainvisa and applying it to fMRI data in AFNI? I have a sulcal mask in NIFTI format that overlays nicely onto the T1 image in the Anatomist GUI. However, when I open that up as an overlay in AFNI, it's nowhere near the right position for that subject. I have gone through the Brainvisa forum and it seems that they have a particular coordinate system that they use for the sulcal meshes and that there is probably a way to get and apply the inverse matrix to put the ROI back into native space, but I can't figure the exact process out.

As a response to an earlier post on this topic, I was asked to compare the headers of the sulcal mask and my T1 image. The results were as follows:

name offset nvals values
------------------- ------ ----- ------
dim 40 8 3 256 256 166 1 1 1 1
dim 40 8 3 166 256 256 1 1 1 1
pixdim 76 8 1.0 0.9375 0.9375 1.2 0.0 0.0 0.0 0.0
pixdim 76 8 -1.0 1.2 0.9375 0.9375 1.0 1.0 1.0 1.0
vox_offset 108 1 6352.0
vox_offset 108 1 352.0
xyzt_units 123 1 2
xyzt_units 123 1 0
sform_code 254 1 1
sform_code 254 1 0
quatern_b 256 1 -0.5
quatern_b 256 1 0.0
quatern_c 260 1 0.5
quatern_c 260 1 1.0
quatern_d 264 1 -0.5
quatern_d 264 1 0.0
qoffset_x 268 1 -104.089996
qoffset_x 268 1 -98.400002
qoffset_y 272 1 156.994995
qoffset_y 272 1 -120.0
qoffset_z 276 1 91.644798
qoffset_z 276 1 -120.0
srow_x 280 4 -0.0 -0.0 1.2 -104.089996
srow_x 280 4 0.0 0.0 0.0 0.0
srow_y 296 4 -0.9375 -0.0 -0.0 156.994995
srow_y 296 4 0.0 0.0 0.0 0.0
srow_z 312 4 0.0 -0.9375 0.0 91.644798
srow_z 312 4 0.0 0.0 0.0 0.0

Any help would be greatly appreciated!

Lisa Eyler