what do you mean by painted? Do you mean you drew them on there using
FreeView?
On 2/19/2021 11:37 AM, Kristi Drudik wrote:
External Email - Use Caution
Hi Doug,
The sulci are .label format because they were painted directly on the
surface using FreeSurfer 7.1.
Best,
Kristi
*From:*freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of *Douglas N. Greve
*Sent:* February 19, 2021 10:16 AM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* Re: [Freesurfer] Sulcal probability maps
What format is your sulcus in?
On 2/16/2021 2:38 PM, Kristi Drudik wrote:
* External Email - Use Caution *
Good afternoon,
I hope this email finds you well.
I am in the process of “painting” MRI surfaces from the Human
connectome project in FreeSurfer, meaning creating labels on the
surfaces to analyze sulcal morphology. We are interested in the
spatial variability of the sulcus and thus, want to create surface
spatial probability maps using FreeSurfer (*please see attachment
for an example of such surface probability maps*). These maps
would represent the likelihood of each vertex on the FreeSurfer
fsaverage surface belonging to the sulcus of interest (from 0% to
100%).
To obtain these probability maps, I:
1. Painted the sulcus of interest on the surface by creating a
.label file.
2. Registered this .label file to fsaverage (mri_label2label)
3. Converted the .label file to vol (mri_label2vol)
4. Converted it to a surface file (mri_vol2surf)
5. Concatenated the data to create an average (mri_concat --mean)
6. Blurred the data and loaded the blurred average as an overlay
onto the fsaverage pial (mris_fwhm)
Because this seems very convoluted, my question becomes*_: Is
there a more direct way to generate these maps from the labels
themselves, rather than going from label to vol, then back to surf? _*
Finally, I would like these maps to represent a 0-100% range of
each vertex in fsaverage belonging to the sulcus of interest.
However, this method creates a 0-1 range (please see colour bar in
attachment). *_Is there a way to change this to a percentage?_*
Thank you very much for your time and help. Please let me know if
you have any questions.
Best,
Kristi
**
*Kristi Drudik *
Ph.D. Student, Clinical Psychology
Montreal Neurological Institute
McGill University
Montreal, Canada
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