Dear FSL experts:
Sorry to post it again, but I really do not find a solution.Any reply and input I'll be grateful!
I segmented corpus callosum in the FA map in the following way.
1) Get FA map using FSL.
2) Registering FA map to FMRIB58(or MNI152) using FLIRT.
3) Segmenting CC( 10 mm thickness) in the flirted FA map.
4) Getting the converted matrix file using convert_xfm(convert_xfm -omat dti_FA_flirt_converted.mat -inverse dti_FA_flirt.mat).
5) Getting CC mask in the original FA map using flirt.
flirt -in CC_mask -ref dti_FA.nii.gz -applyxfm -init dti_FA_flirt_converted.mat -out CC_mask_original
But the CC mask in the original space( FA map) is incomplete. Is -applyxfm not fit for DTI image?
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