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help > QCistern missing occipital regions when using T1 + Brainmask
Oct 14, 2019 05:10 PM | cccoleman
QCistern missing occipital regions when using T1 + Brainmask
We're using T1s and Brainmasks, skipping reorient and skull
stripping, then running tissue seg and ventricle
masking.
In some subjects, we got bad-looking results, where whole chuck of csf are 'missing' where there clearly should be csf. For example:
Suspecting this was an orientation problem, I reoriented the image using Flirt (using 1year-Average-IBIS-MNI-T1w as ref) and applied the same transform to the brainmask. Then they were run through AutoEACSF.
The results were much better, but still have a missing chunk:
Is this to be expected, or a sign something is wrong? Any ideas on how to fix it?
C
In some subjects, we got bad-looking results, where whole chuck of csf are 'missing' where there clearly should be csf. For example:
Suspecting this was an orientation problem, I reoriented the image using Flirt (using 1year-Average-IBIS-MNI-T1w as ref) and applied the same transform to the brainmask. Then they were run through AutoEACSF.
The results were much better, but still have a missing chunk:
Is this to be expected, or a sign something is wrong? Any ideas on how to fix it?
C
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Title | Author | Date |
---|---|---|
cccoleman | Oct 14, 2019 | |
Martin Styner | Oct 15, 2019 | |
cccoleman | Oct 18, 2019 | |
Martin Styner | Oct 28, 2019 | |