Hello, I am having some problems editing the volume created after the -recon-all -all function in FreeSurfer. The brain that is being generated has too much grey matter excluded. I've searched the wiki for ways to include these grey matter regions during my editing, but have found nothing. I have attached a picture of the problem I am having. The orange arrow points to the part of the grey matter that I would like to be included in the boundary. Is there a way to do this?
Thank you in advance, Kristina
Hi Kristina
your arrows are pointing at the hippocampus which is not neocortical and not intended to be modeled by the surfaces
cheers Bruce
On Tue, 4 Dec 2012, Kristina Nalbandian wrote:
Hello, I am having some problems editing the volume created after the -recon-all -all function in FreeSurfer. The brain that is being generated has too much grey matter excluded. I've searched the wiki for ways to include these grey matter regions during my editing, but have found nothing. I have attached a picture of the problem I am having. The orange arrow points to the part of the grey matter that I would like to be included in the boundary. Is there a way to do this?
Thank you in advance, Kristina
Hi Kristina, More info here: https://surfer.nmr.mgh.harvard.edu/fswiki/UserContributions/FAQ#Q.Thesurface... -Louis
On Tue, 4 Dec 2012, Bruce Fischl wrote:
Hi Kristina
your arrows are pointing at the hippocampus which is not neocortical and not intended to be modeled by the surfaces
cheers Bruce
On Tue, 4 Dec 2012, Kristina Nalbandian wrote:
Hello, I am having some problems editing the volume created after the -recon-all -all function in FreeSurfer. The brain that is being generated has too much grey matter excluded. I've searched the wiki for ways to include these grey matter regions during my editing, but have found nothing. I have attached a picture of the problem I am having. The orange arrow points to the part of the grey matter that I would like to be included in the boundary. Is there a way to do this?
Thank you in advance, Kristina
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Kristina Nalbandian -
Louis Nicholas Vinke