Hi, Greve,

Thanks a lot! It works. But I got another question now,
I used mri_convert to convert a NIFTI file 002.nii to MGZ file 002.mgz. I also want to register 002.nii
using the brainmask as the reference volume. Here, 002.nii is a 180x256x256 volume.
My command line is
 
bbregister --s data_2 --mov 002.nii --init-fsl --t1 --reg nureg.dat --o nuDReg.mgz

There is no error when the program is running, however the registration results is bad.
Could you give some suggestions?


Guang


> Date: Wed, 19 Aug 2009 16:59:11 -0400
> From: greve@nmr.mgh.harvard.edu
> To: freesurfer_zg@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] tkregsiter2 problem
>
> Use bbregister, something like:
>
> bbregister --s subjectname --mov 002.mgz --init-fsl --t1 --reg
> register.dat --o 002.anat.mgz
>
>
>
> Guang Zeng wrote:
> > Hi, there,
> >
> > I have the two scans (001.mgz and 002.mgz) of the same subject,
> > 001.mgz is used as the input of recon-all .... -autorecon1,
> > now I have a brainmask.mgz using 001.mgz, I want to register 002.mgz
> > using brainmask.mgz as reference volume, which command I can use?
> > tkregister2?
> >
> > Thanks a lot!
> > Guang
> >
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> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> greve@nmr.mgh.harvard.edu
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>
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