Hi Doug,

Typically, we are seeing these "ctx-unknown" voxels in insula or entorhinal cortex bordering amygdala so its a bit difficult to see from the surface view. On some subjects, it looks like the aparc surface annotation does not extend to cover the entire surface. I've attached a screenshot to help illustrate.

Best and thanks,
Jake

On Thu, Sep 21, 2017 at 6:13 PM, Jake Rieke <jakerieke@gmail.com> wrote:
Hi Doug,

Typically, we are seeing these "ctx-unknown" voxels in insula or entorhinal cortex bordering amygdala so its a bit difficult to see from the surface view. On some subjects, it looks like the aparc surface annotation does not extend to cover the entire surface. I've attached a screenshot to help illustrate.

Best regards,
Jake

Biomedical Engineer, Brain Rehabilitation Research Center
Malcolm Randall VA Medical Center, 1601 SW Archer Road, Gainesville, FL 32608

On Thu, Sep 21, 2017 at 5:04 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:
we don't have a path for editing aparc+aseg. Are the areas unknown on
the surface?


On 09/21/2017 02:20 PM, Jake Rieke wrote:
> Hi FreeSurfers,
>
> I have a group of subjects with manual edits to the aparc+aseg volume.
> These edits were made to re-label unknown regions of cortex. I am
> wondering what recon-all flags I could use to implement the changes
> and re-generate cortical stats based on these edits. Thanks in advance.
>
> Best regards,
> Jake
>
>
>
>
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