Hi
I am trying to analyse some preterm neonate DTI data using TBSS. I seem to be running into
problems with tbss_3_postreg, with registration of my neonate brain FA maps to mni152 space.
My thoughts are that it would more appropriate to complete the entire analysis in raw image space
(eg target FA map) rather than forcing registrations into 152 space.
In a previous query by someone else it was suggested to change:
$FSLDIR/bin/flirt -in $FSLDIR/etc/standard/avg152T1_brain -ref $FSLDIR/etc/standard/avg152T1
-out MNI152 -applyisoxfm 1
to
$FSLDIR/bin/flirt -in target -ref target -out MNI152 -applyisoxfm 1
I have tried this option but get unusual distortions on the target_to_MNI152 and FA skeleton maps
(see attached files).
Is there a way to bypass the registration step to 152 space (in tbss-3-postreg) and keep
everything in the target image space for the remainder of the analysis steps? This seems the only
option until someone comes up with a neonate equivalent of the mni152. Any help would be much
appreciated.
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