Dear all,

I need to extract the positions of depth electrodes from CT images (in subject space). I currently coregister post-implant CT to pre-implant MRI using FSL/Flirt which works fine. However, when I open the coregistered CT in BioImageSuite, the electrode positions - when defined and exported using the electrode editor - seem to be off/wrong, the CT itself seems to be shifted as well as flipped along the X-axis compared to the coordinates I get in fslview (or 3D Slicer for that matter, which gives exactly the same positions as fslview). I assume this has to do with differing interpretation of the header information among the programs?
Can anyone tell me how to set up BioImageSuite to get corresponding electrode localisations in subject space? I find the rest of the editor very helpful, so any suggestions would be highly welcome.

Thanks in advance,
Johann Philipp Zöllner