Definitly do not use --rot 180.
I think the registration matrix goes in the other direction, so try
adding --inv to the command line and changing --targ and --mov
On 7/25/18 8:24 PM, Sims, Sara A wrote:
External Email - Use Caution
Hello,
I am trying to put a mask that I made on the MNI brain (that had been
run through recon) into individual subject space. I have already
created a registration matrix using the following command:
mni152reg --s $patient --o
$registration/$patient/registermni_$patient.dat --1 --save-vol
Now I want to apply this matrix but from MNI -> subject. So I tried
doing this:
mri_vol2vol --targ $patient/mri/orig.nii --mov
$mnimask/net4splitmask_bin.nii --reg
$registration/$patient/registermni_$patient.dat --o
$outp/$patient/net4splitmask_bin.nii --nearest --rot 180 0 0
But it just spits back out the MNI mask
($mnimask/net4splitmask_bin.nii) in MNI space. I tried using -inv but
realized that was wrong because then it just gave me the subject’s
orig. How can I get it to actually put the MNI-space mask onto the
subject’s brain?
Sara
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