| T O P I C R E V I E W |
| lh115 |
Posted - Jun 28 2010 : 2:12:58 PM
Hi,
I am trying to register the resting state scan of multiple subjects to MNI space. After motion correction and high-pass/low-pass filtering, I have tried to input subjects resting scans into the FLIRT linear registration tool. Using the FLIRT GUI creates the following command:
flirt -in filtered.nii -ref MNI152_T1_2mm_brain -out filtered_reg.nii.gz -omat filtered_reg2.mat -bins 256 -cost corratio -searchrx -90 90 -searchry -90 90 -searchrz -90 90 -dof 12 -interp trilinear
This works well but registers only one volume of the functional data. When I use the ‘-applyxfm’ option, FLIRT registers all of the volumes, but the brain becomes off center and cut off. Am I using this command correctly for a 4D image?
Would it be possible to use FEAT somehow for registration? I was under the impression that the filtered_func_data.nii.gz from a lower level FEAT is not registered to MNI space.
Thanks,
Lars
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| 1 L A T E S T R E P L I E S (Newest First) |
| syam.gadde |
Posted - Jun 28 2010 : 2:21:35 PM
The command featregapply will apply any registration matrices to the filtered_func_data.nii.gz file (as well as cope* files) and put it in a reg_standard directory. This is very convenient if you have already run FEAT.
It might be worthwhile to do that and compare the generated commands to the commands you have tried yourself. |
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