External Email - Use Caution
[image: image1.png] [image: image2.png] Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this?
On Tue, Apr 6, 2021 at 2:07 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this?
Many thanks [image: image.png] [image: image.png]
On Tue, Apr 6, 2021 at 12:07 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this? [image: image.png] [image: image.png]
On Thu, Apr 1, 2021 at 2:00 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Experts,
I did like to extract wm whilst retaining the label ids. I tried mri_extract_labels but it didn't work.
Any help would be appreciated.
Many thanks, Paul
External Email - Use Caution
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids corresponding to different colours. I did like to extract a *non-binarised* wm parcellation that retains the white matter label ids.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this? Many thanks
On Tue, Apr 6, 2021 at 7:15 PM miracle ozzoude miracooloz@gmail.com wrote:
[image: image1.png] [image: image2.png] Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this?
On Tue, Apr 6, 2021 at 2:07 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this?
Many thanks [image: image.png] [image: image.png]
On Tue, Apr 6, 2021 at 12:07 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this? [image: image.png] [image: image.png]
On Thu, Apr 1, 2021 at 2:00 PM miracle ozzoude miracooloz@gmail.com wrote:
Hello Experts,
I did like to extract wm whilst retaining the label ids. I tried mri_extract_labels but it didn't work.
Any help would be appreciated.
Many thanks, Paul
You can use mri_binarize --i seg.mgz --match MatchID --binval MatchId --o mask.MatchID.mgz
On 4/7/2021 9:05 AM, miracle ozzoude wrote:
External Email - Use Caution
Hello Doug,
Thanks for the reply.
I've a parcellation of the gm and wm with different label ids corresponding to different colours. I did like to extract a *non-binarised* wm parcellation that retains the white matter label ids.
mri_extract_label and mri_binarize don't keep the different colours.
Is there a freesurfer command to achieve this? Many thanks
On Tue, Apr 6, 2021 at 7:15 PM miracle ozzoude <miracooloz@gmail.com mailto:miracooloz@gmail.com> wrote:
image1.png image2.png Hello Doug, Thanks for the reply. I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2. mri_extract_label and mri_binarize don't keep the different colours. Is there a freesurfer command to achieve this? On Tue, Apr 6, 2021 at 2:07 PM miracle ozzoude <miracooloz@gmail.com <mailto:miracooloz@gmail.com>> wrote: Hello Doug, Thanks for the reply. I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2. mri_extract_label and mri_binarize don't keep the different colours. Is there a freesurfer command to achieve this? Many thanks image.png image.png On Tue, Apr 6, 2021 at 12:07 PM miracle ozzoude <miracooloz@gmail.com <mailto:miracooloz@gmail.com>> wrote: Hello Doug, Thanks for the reply. I've a parcellation of the gm and wm with different label ids (see screenshot 1). I did like to extract a *non-binarised* wm to look like screenshot 2. mri_extract_label and mri_binarize don't keep the different colours. Is there a freesurfer command to achieve this? image.png image.png On Thu, Apr 1, 2021 at 2:00 PM miracle ozzoude <miracooloz@gmail.com <mailto:miracooloz@gmail.com>> wrote: Hello Experts, I did like to extract wm whilst retaining the label ids. I tried mri_extract_labels but it didn't work. Any help would be appreciated. Many thanks, Paul
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