Dear Dr. Greve,

Thank you so much for your prompt response.

I included your advice in the processing steps as bellow:

1- recon all

2- mri_binarize --i aparc.a2009s+aseg.mgz --o ROI.nii --match min max

3- bbregister --s --sub01 --mov meanfuctional.nii --initi-fsl --reg register.dat

4- mri_label2vol --seg --ROI.nii --temp meanfuctional.nii --reg register.dat --fillthresh 0.5 --o ROI_2.nii

I was wondering if you could check and verify the steps?

As another question is the ROI_2.nii coregistered with meanfunctional.nii?

Best Regards,

Rihana

On Fri, Aug 16, 2019 at 2:09 AM Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> wrote:

You shoul use mri_label2vol with ROI.nii as the --seg input. How do you
know that --regheader is right?

On 8/15/19 3:13 PM, Rihana Rayan wrote:
>
> External Email - Use Caution
>
> Dear FS users,
> I have performed recon-all on structural data and created ROIs (using
> mri_binarize), I want to mask functional data (GLM beta) with ROIs. To
> match the file sizes, I resampled the ROI.nii by performing the command:
> mri_vol2vol --mov ROI.nii --targ beta_01.nii --regheader --o
> ROI_in_beta.nii
> Multiplying ROI_in_mask.nii by GLM beta, results in NaN over some
> voxels. Can anyone help me solve the problem?
>
> Best regards,
> Rihana
>
>
>
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