External Email - Use Caution
Dear Freesurfer experts,
Could you please let me know how to normalize fMRI data without upsampling
the original voxel size from 5 x 5 x 7 mm to 2 x 2 x 2 mm? I have tried
this as follows:
1. Register functional (data.nii) to anatomical matrix
bbregister --s $subject --bold --init-fsl --mov data.nii --reg
register.dof6.dat
2. Register anatomical to mni152:
mni152reg --s $subject
3. Create registration between functional and mni152
mri_matrix_multiply -im register.dof6.dat -iim reg.mni152.2mm.dat -om
reg.mni152.dat
4. Resample func to mni152 space
mri_vol2vol --targ $FSLDIR/data/standard/MNI152_T1_2mm.nii.gz --mov
data.nii --reg reg.mni152.dat --o data.mni152.nii --no-resample
I checked the registrations after each step. After step 4, the functional
data and the template are not fully aligned if I use “no-resample”.
Without no-resample, the registration seems successful, but the fMRI data
has a voxel size of 2mm.
Best,
Maria
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
