One of our clinical groups is going to use a custom T1-like anatomical
sequence that provides enhanced contrast in their structures of
interest. BET does not seem to work on these scans. I'm guessing
that's because of lower GM/CSF contrast and because the intensities of
the voxels outside of the head are similar to white matter voxel
intensities.
Any suggestions on getting BET to work for tissue contrast similar to
inversion-recovery images? Here are some screenshots:
T1-like contrast, showing full range of intensity values in volume:
http://mbi-11.mbi.ufl.edu/~stowler/screenshots/T1ish_inverted_whole_window.png
T1-like contrast, with restricted fslview intensity window:
http://mbi-11.mbi.ufl.edu/~stowler/screenshots/T1ish_inverted_whole_window.png
The original as it comes from the scanner, showing full range of
intensity values in volume:
http://mbi-11.mbi.ufl.edu/~stowler/screenshots/T1ish_inverted_whole_window.png
The original as it comes form the scanner, with restricted fslview
intensity window:
http://mbi-11.mbi.ufl.edu/~stowler/screenshots/T1ish_from_scanner_restricted_window.png
The obvious answer is to create a mask from a standard T1.
Unfortunately that's not practical as the total scan time is already
pushed to the limit for these very time sensitive patients.
Any thoughts welcomed.
Thanks!
Stephen
--
(please note email change from mbi.ufl.edu to ufl.edu)
Stephen Towler
[log in to unmask]
352-294-0048 office
352-258-6409 mobile
352-392-8347 fax
Leonard Lab
Department of Neuroscience
PO Box 100244
University of Florida HSC
Gainesville, FL 32610
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