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Incorporating outside registration into pipeline

You are here: Home1 / Forums2 / Support forum ARCHIVED – Please use Slack Channel instead3 / Incorporating outside registration into pipeline4

Tagged: registration errors

Viewing 3 posts - 1 through 3 (of 3 total)
  • Author
    Posts
  • 04/02/2018 at 8:33 PM #4463
    weaverk
    Participant

    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

    04/03/2018 at 8:04 AM #4464
    andreashorn
    Keymaster

    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

    04/03/2018 at 6:27 PM #4467
    weaverk
    Participant

    Great, Thanks Andy.
    That worked perfectly!

    Best,
    Kurt

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