HI Evie
You can try thresholding the premotor area, or removing the intersection with
precentral gyrus (or both)
Cheers
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Tsolaki, Evangelia C.
Sent: Monday, December 13, 2021 3:18 PM
To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Definition of Premotor Area
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Hello,
Yes the problem is that there is an overlap between the premotor and motor
area. Does FreeSurfer provide any other masks that can be used for the premotor
area?
Thank you in advance,
Evie
From:
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
<freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
on behalf of Douglas N. Greve
<dgr...@mgh.harvard.edu<mailto:dgr...@mgh.harvard.edu>>
Date: Friday, December 10, 2021 at 3:43 PM
To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
<freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] Definition of Premotor Area
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Is the problem that there is an overlap? The exvivo labels and aparc labels are
not going to be mutually exclusive.
On 12/6/2021 5:34 PM, Tsolaki, Evangelia C. wrote:
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Hello Freesurfer Team,
I am interested in using premotor, precentral gyrus and postcentral gyrus in my
analysis.
For the definition of the precentral gyrus and postcentral gyrus I use the
following lines:
fslmaths aparc+aseg.nii.gz -thr 1024 -uthr 1024 PreCG_L.nii.gz
fslmaths aparc+aseg.nii.gz -thr 2024 -uthr 2024 PreCG_R.nii.gz
fslmaths aparc+aseg.nii.gz -thr 1022 -uthr 1022 PostCG_L.nii.gz
fslmaths aparc+aseg.nii.gz -thr 2022 -uthr 2022 PostCG_R.nii.gz
To define the premotor area I use the labels rh.BA6_exvivo.label and
lh.BA6_exvivo.label according to the script below:
bbregister --s SubID_FreeSurfer --mov nodif.nii.gz --reg lowb2orig.dat --dti
--init-fsl
mri_label2vol --label SubID_FreeSurfer /label/rh.BA6_exvivo.label --reg
lowb2orig.dat --fillthresh .3 --hemi rh --subject SubID_FreeSurfer --o
BA6_R.nii.gz --temp nodif.nii.gz --proj frac 0 1 .1
When I check the location of the resulted BA6 and precentral gyrus masks, there
is an overlap. Could you please advise if there is any other way to define
premotor area?
Thank you in advance,
Evie
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