Dear Freesurfer Developers,

thanks for your email.

As I said I tried to increase number of parcels based on desikan atlas. After increasing number of parcels from 68 to 100 by using the following commands:

mris_divide_parcellation subj lh aparc.annot splitfile Desikan100

mris_divide_parcellation subj rh aparc.annot splitfile Desikan100

mri_aparc2aseg --s subj --annot Desikan100 --old-ribbon --o $SUBJECTS_DIR/subj/mri/Desikan100.subj.mgz

the thickness of gray matter was decreased. Although the applied method increased the number of parcels,the resulting parcels are not continuous as it is shown in picture. In other words,when I see the volume of resulting parcels, I can see that part of parcels are union of smaller volumes.

Sincerely yours,

Najme

On Thu, 17 Dec 2020 at 18:01, Greve, Douglas N.,Ph.D. <DGREVE@mgh.harvard.edu> wrote:

Sorry, I can't tell from your email what the problem is. Can you elaborate?

On 12/9/2020 2:30 PM, najme soleimani wrote:
External Email - Use Caution

Dear FreeSurfer Developers,
I downloaded the HCP_1200 subjects' structural extended data. I am attempting to have equal sized parcellation on scale 100, so I used parcellation results of Desikan atlas and increased the parcels from 68 to 100.

after obtaining split file, I run the following commands on FreeSurfer:

mris_divide_parcellation subj lh aparc.annot splitfile Desikan100

mris_divide_parcellation subj rh aparc.annot splitfile Desikan100

mri_aparc2aseg --s subj --annot Desikan100 --old-ribbon --o $SUBJECTS_DIR/subj/mri/Desikan100.subj.mgz

The interesting part is that after running this command some disconnectivity were seen in the parcels as it is shown in the picture. In 3D view, also, when the parcels were loaded on dsi studio, there were some holes on the parcels which caused disconnected parcels.

I will appreciate if you help me to solve this problem.

kind regards,

Najme
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer