Hi Prof. Greve,
Thanks for your reply and sorry for the confusion.
I have a 4D fMRI dataset with 10 time frames, where the intensity of each voxel is between [-1,1] and not integers. I want to map the intensities of the volumes on its corresponding surface in order to get the functional values on each vertex in each frame. I have already run its corresponding anatomical image in freesurfer.
To achieve it, I tried the following steps:
1. conform the fmri series by using mri_convert
2. register the fmri series with the anatomy image by using bbregister: bbregister --mov 4Dvol.nii --s bert --reg register.dat
3. assign values from volumes to each vertex by using mri_vol2surf: mri_vol2surf --src 4Dvol.nii --out lhtest.mgz --srcreg register.dat --hemi lh
I also tried the -regheader in mri_vol2surf: mri_vol2surf --src 4Dvol.nii --out lhtest.mgz --regheader bert --hemi lh
The 4Dvol.nii aligns very well with the orig.mgz in freeview. But after step2, the registered volume looks wrong. I am wondering could I use bbregister to register multi-frame fMRI series to a single volume?
I also tried to use --regheader to replace the --srcreg file in mri_vol2surf as the output register.dat in step2 is wrong. But the output is still wrong.
Many thanks.
Best,
An
When you say it is 4D, what do you mean? That each label has its own frame?
On 11/6/19 5:59 PM, 曲岸 wrote:
>
> External Email - Use Caution
>
> Hi there,
>
> I am working with creating a surface parcellation from a volumetric
> parcellation and have some questions as follows:
>
> 1. If the volumetric parcellation is a labeled 4D multi-frame dataset,
> could I still use the mris_sample_parc? Or could mri_vol2surf get the
> sampled labels for every vertex?
>
> 2. For the 4D multi-frame dataset and mri_vol2surf output results,
> which GUI should I use to visualize it? I tried freeview for 4D
> multi-frame dataset but it looks weird.
>
> 3. Is there any command to separate multi-frame volume to single frame
> volumes?
>
> Many thanks!
>
>
> Best,
> An
>
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