Dear list,
I have problem with the brainmask from a subject where there is removed to much of the gray matter. So, I would like to hear if someone has a good idea where I should start to fix this issue?
I have attached a jpgs of the brainmask and orig, and a link to the recon-all.log
best regards, mads
Hi Mads
what does it look like if you move off the mideline? Or check a coronal view? Sagittal views of the midline are notoriously bad for judging skull stripping accuracy
cheers Bruce On Tue, 19 Aug 2014, Mads Jensen wrote:
Dear list,
I have problem with the brainmask from a subject where there is removed to much of the gray matter. So, I would like to hear if someone has a good idea where I should start to fix this issue?
I have attached a jpgs of the brainmask and orig, and a link to the recon-all.log
best regards, mads
Hi Bruce (and the rest of the list),
It looks better (see attached) but it still look like it removed too much.
cheers for the point though, Mads
On 21/08/14 16:22, Bruce Fischl wrote:
Hi Mads
what does it look like if you move off the mideline? Or check a coronal view? Sagittal views of the midline are notoriously bad for judging skull stripping accuracy
cheers Bruce On Tue, 19 Aug 2014, Mads Jensen wrote:
Dear list,
I have problem with the brainmask from a subject where there is removed to much of the gray matter. So, I would like to hear if someone has a good idea where I should start to fix this issue?
I have attached a jpgs of the brainmask and orig, and a link to the recon-all.log
best regards, mads
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Are you sure? Did you flip back and forth between this and a volume with the skull?
On Aug 25, 2014, at 7:13 AM, Mads Jensen mje.mads@gmail.com wrote:
Hi Bruce (and the rest of the list),
It looks better (see attached) but it still look like it removed too much.
cheers for the point though, Mads
On 21/08/14 16:22, Bruce Fischl wrote: Hi Mads
what does it look like if you move off the mideline? Or check a coronal view? Sagittal views of the midline are notoriously bad for judging skull stripping accuracy
cheers Bruce
On Tue, 19 Aug 2014, Mads Jensen wrote:
Dear list,
I have problem with the brainmask from a subject where there is removed to much of the gray matter. So, I would like to hear if someone has a good idea where I should start to fix this issue?
I have attached a jpgs of the brainmask and orig, and a link to the recon-all.log
best regards, mads
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
<coronal.jpg> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Mads Jensen