Import &
Coregistration

ANTs coregistration

All modalities are registered to MRI 1 using ANTs (Advanced Normalization Tools): rigid then affine, except for the CT, which is rigid only, so the geometry of the electrodes is never scaled.

Transform matrices are saved for downstream use.

Automatic brain masking

NeuXelec uses template-based ANTs registration to generate a brain mask from the MRI 1 volume. The mask constrains all downstream processing to brain tissue, improving coregistration quality and SISCOM accuracy.

The cockpit

Every image of the patient is listed with three columns: loaded, coregistered, saved. A green dot means done, an orange dot is what remains to do, an empty circle means nothing is there. A coregistration only turns green once you have reviewed it, because only a reviewed one can be saved.

So the state of the patient reads at a glance, without re-running anything.

Save coregistered images

Once coregistration is reviewed, all aligned volumes can be written from one window, line by line or all at once. Each coregistered file is saved in NIfTI format to your project directory, ready for further analysis or sharing with collaborators.

The save then offers to remove the files that led to it: a CT arrives as a DICOM folder, becomes a NIfTI, then a cleaned copy, and only then the volume resampled into MRI 1. Nothing is ticked in advance, and what you let go goes to the recycle bin.

Visual validation

After coregistration, use the built-in overlay viewer to inspect alignment quality for any pair of modalities. Adjust or re-run registration if needed: all original files remain untouched.

SISCOM computation

When both ictal and interictal SPECT scans are loaded and coregistered, NeuXelec computes SISCOM automatically: normalization, subtraction, z-score map, thresholded result.