it seems leaddbs is not dealing well with my MRI files in the localization of the electrodes.
Both of them were acquired in sagital planes, but after your suggestion I named them after the expected notation tra.nii and pre_tra.nii. However, once I have to check the normalization it does not seems correct to me. Do i need to change manually the orientation in these files to be in the axial planes?
Also, I wanted to visualize the electrodes over the accumbens and caudate nucleus, since accumbens is not in the atlas provided, I thought that Harvard Oxford could be a good choice.
Is it enough with defining rh and lh folders, and the .nii files for each of these structures?