[ Sorry for the delay, we had a small storm uphere in the northeast to deal with.]

Unfortunately BioImage Suite does not save out DICOM images, only analyze/nifty -- you will need external software to do that.

In general you have a few options w.r.t. localization.

The easiest is to registered the MRI and the CT and save out the resliced CT image. Then localize the electrodes in this resliced CT space. Then you can load the MRI image in the editor which should match OK. (The linear registration may not be perfect but there is no great way to do a nonlinear MRI to CT mapping directly -- we use an intermediate post-implantation MRI image here and do nonlinear pre-MRI to post-MRI and linear post-MRI to post-CT)

Alternatively you can transform the electrodes to MRI space once you have localized them. To do this bring up the transform grid control from the Electrode Editor Control (under the Grid menu Grid|Transform Grid) and load the matrix in any of the three slots (they are combined) and then INVERT the matrix. The matrix maps stuff from MRI to CT and you need to do the opposite.

Good luck,

Xenios