Hi All, I was wondering what software people have used in their labs for mapping fMRI data onto surfaces and getting the alignment done. If Caret can do it, I'm still unclear on how to turn .img/.hdr or .mat files into .paint files view on them.
The following are a few technical questions about v5.5 vs v5.51 definitions of voxel center: I see that after switching from Caret v5.5 to v5.51 that the default way Caret sets the origin has changed from being at the corner of the voxel to the center (at least as far as I can tell with the cursor and XYZ, IJK coordinates). So if I transfer my volumes with v5.5 origins (XYZ = 0,0,0) to v5.51, the origin shifts to XYZ= 0.5,0.5,0.5. Does this mean that v5.5 and v5.51 define the center of voxels differently? When adjusting the origin by .5mm increments, the cursor in either version does not reflect the change, so the definition of voxel center is left somewhat ambiguous. Now the real problem is here: if I reposition the origin with v5.51 standards (center of the voxel), will this create an .5mm offset with all my v5.5 segmentation and v5.51 surfaces? Might this affect the alignment between the volume and created surfaces in v5.5 vs v5.51? Are the surface coordinates relative to the volumes kept consistent when the surfaces are exported to .vtk files? This is fairly important in terms of retinotopic mapping. On a related note, is it possible to do an analogous operation like "Resize Underlay Volume" and "set origin" on segmentations? This seems to be necessary when performing the "Mathmatical Operations" (OR, AND, etc...) of segmentations of same scale but different matrix sizes for the same brains. It may also be usful for solving these offset problems described above. Thanks so much! Joseph
