External Email - Use Caution
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
Greve, Douglas N.,Ph.D. <dgr...@mgh.harvard.edu> 于2019年11月11日周一 下午12:16写道：
> 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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>
>
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