Hi Mark,
Here's what I did, following these steps:
file://localhost/homes/pbedard/Pat/fsl/doc/flirt/ztrans.html
flirt -ref 46_EP.nii -in 20_EP.nii -schedule
/homes/pbedard/Pat/fsl/etc/flirtsch/ztransonly.sch -out 20_to_46 -omat
20_to_46.mat
flirt -ref Pat_3T_32ch_MP_bet.nii.gz -in 46_EP.nii -out 46_to_MP -omat
46_to_MP.mat
flirt -ref /homes/pbedard/Pat/fsl/data/standard/MNI152_T1_1mm_brain.nii.gz
-in Pat_3T_32ch_MP_bet.nii.gz -out MP_MNI -omat MP_to_MNI.mat
convert_xfm -concat 46_to_MP.mat -omat 20_to_MP.mat 20_to_46.mat
convert_xfm -concat MP_to_MNI.mat -omat 20_to_MNI.mat 20_to_MP.mat
flirt -ref /homes/pbedard/Pat/fsl/data/standard/MNI152_T1_1mm_brain.nii.gz
-in 20_EP.nii -applyxfm -init 20_to_MNI.mat -out 20_EP_MNI
The 20_EP_MNI is completelly mis-aligned and rotated; it's even gard to
really kbow in which way!
I attached the anat overlaid by the 20_EP_MNI.
Can you see what's not working right??
Thanks!!
|