Incorporating outside registration into pipeline

[weaverk]

Hello,

I have a post-op CT scan chalked full of artifact. As a result, none of the registration options via the GUI resulted in a decent enough registration (post op CT to pre-op T1) to accurately construct electrode placement. However, using a normalized mutual information approach in FSL fixed this poor co-registration.

When I tried to rename the FSL output to incorporate back into the lead DBS normalization pipeline, it error-ed out, stating the registration matrices were misaligned.

Is there a standard way to incorporate outside CT-T1 registrations back into the processing pipeline?
Thank you for your help,

Best,
Kurt
University of Washington

[andreashorn]

Hi Kurt,

the rpostop_ct.nii needs to be resliced to the anat_*.nii files for it to work.
You can do so by calling

ea_conformspaceto(‘anat_t1.nii’,’rpostop_ct.nii’)
but please note this changes/overwrites the rpostop_ct, so better make a copy of it.

After that make sure images are still co-registered (e.g. with SPM).

then it should work.

Best, Andy

[weaverk]

Great, Thanks Andy.
That worked perfectly!

Best,
Kurt

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