What format is your sulcus in?
On 2/16/2021 2:38 PM, Kristi Drudik wrote:
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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:
* Painted the sulcus of interest on the surface by creating a .label
file.
* Registered this .label file to fsaverage (mri_label2label)
* Converted the .label file to vol (mri_label2vol)
* Converted it to a surface file (mri_vol2surf)
* Concatenated the data to create an average (mri_concat --mean)
* 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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