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

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?

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