Hi FSL Experts,
I am trying to transform a binary ROI mask from T2 space to diffusion (b0) using flirt (trilinear) and the inverse_b02T2.mat transformation matrix.
flirt -in ROI_inT2space.nii.gz -ref b0.nii.gz -out ROI_inDiffussionspace.nii.gz -init inverse_b02T2.mat -applyxfm
But the transformed mask is all zeros. I tried different sizes of ROI but the output is still all zeros. I am grateful for any advice you can offer.
Best regards,
Farhad
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