Hi @jtournier,
Finally, we performed ants in order to warp the tck file into MNI space. We obtained an optimal results.
We used the following steps:
fslchfiletype NIFTI MNI152_T1_1mm.nii.gz
ANTS 3 -m CC[MNI152_T1_1mm.nii,T1_image.nii,1,5] -t SyN[0.5] -r Gauss[2,0] -o T1_to_MNI_synants.nii -i 30x90x20 --use-Histogram-Matching
warpinit MNI152_T1_1mm.nii flirtMNI-.nii -force
for i in 0 1 2;do
WarpImageMultiTransform 3 flirtMNI-{i}.nii flirtMNI2tck-{i}.nii -R MNI152_T1_1mm.nii -i T1_to_MNI_synantsAffine.txt T1_to_MNI_synantsInverseWarp.nii
done
warpcorrect flirtMNI2tck-.nii flirtMNI2tck_corr.mif -force
tcknormalise {STRUCTURAL}/brain_track.tck flirtMNI2tck_corr.mif {OUT}/brain_track.tck -quiet -force
I really appreciate your support,
Cheers
Eloy