Hi,

I am making ROIs using fslmaths -roi, which requires voxel numbers in the voxel coordinate space. To obtain voxel numbers, I opened MNI_152_2mm_brain from FSL in MRIcroGL and entered the MNI coordinates. It was not straightforward to find voxel coordinates. For example, for MNI coordinates (32, -56, -10), I see these coordinates along with what I assumed to be voxel cordinates (61,35,31), displayed on the title bar. I also tried with fsleyes and got (29, 34, 31) as voxel coordinates. As expected, when I build the ROI with the MRIcroGL voxel coordinates, the ROI is L-R flipped. Is this just some difference in the voxel coordinate systems of FSL and MRIcroGL? Or is there some MRIcroGL config I should know about? And, is there some way to find voxel coordinates from MRIcroGL besides looking at the title bar?

Thanks,

Radha