Stupid me!
I just found what I need: mri_cor2label. It does exactly what I want:
"A utility to sample a volume onto the surface, then create a label of all super-threshold points regardless of whether they are connected or not"
I failed to recognize that I would have to binarize my fMRI activations first using mri_binarize (and selecting an intensity threshold).
This binarized volume files then goes into mri_cor2label using "--id 1".
works perfectly.
Sorry for this. Bastian.
On 24 July 2014 17:25, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
Hi Bastian
can you explain further what you would like? A utility to sample a volume onto the surface, then create a label of all super-threshold points regardless of whether they are connected or not?
cheers Bruce
On Thu, 24 Jul 2014, Bastian Cheng wrote:
Dear Freesurfer-Experts,
Is there an automated way to convert an overlay volume to a label file? I guess I would look for a command called "vol2label".
I am currently projecting volume files (fMRI activiation hotspots) to surfaces (mri_vol2surf): this works nicely.
However I then would have to define labels manually (using "custom fill") by clicking on all (unconnected) spots on my surface.
Please excuse any redundancies, I have not found a good solution in the forum yet.
Best regards, Bastian. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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