Hi experts,
Should I be concerned about the number of white matter errors in the attached tif? Is it normal or unusual to have this many white matter errors after reconstruction? It seems like discussions on editing white matter suggest there are usually only a handful, if any errors to the wm.mgz.
Thanks so much,
Jesse
It's a little bumpier than usual but ultimately you would have to look at the surfaces in tkmedit to determine whether these are errors. Allison
Thank you. I did have the tkmedit and tksurfer windows open at the same time and the surfaces do not seem to be pulling in any non-white matter/dura. When I use the save point/open point and view the wm in tkmedit, I do not see any glaring wm inconsistencies.
The brains I am using have been processed in AFNI - is it better to use original, ac-pic aligned, or talairach dicom files during mri_convert. Could this be causing me problems?
I really appreciate all of the help. Apologies for my inexperience.
Jesse
On Fri, Dec 4, 2009 at 1:46 PM, Allison Stevens < astevens@nmr.mgh.harvard.edu> wrote:
It's a little bumpier than usual but ultimately you would have to look at the surfaces in tkmedit to determine whether these are errors. Allison
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On Fri, 4 Dec 2009, Jesse Bledsoe wrote:
Hi experts,
Should I be concerned about the number of white matter errors in the attached tif? Is it normal or unusual to have this many white matter errors after reconstruction? It seems like discussions on editing white matter suggest there are usually only a handful, if any errors to the wm.mgz.
Thanks so much,
Jesse
Hi Jesse,
we don't find that ac/pc aligning helps.
Bruce
On Fri, 4 Dec 2009, Jesse Bledsoe wrote:
Thank you. I did have the tkmedit and tksurfer windows open at the same time and the surfaces do not seem to be pulling in any non-white matter/dura. When I use the save point/open point and view the wm in tkmedit, I do not see any glaring wm inconsistencies.
The brains I am using have been processed in AFNI - is it better to use original, ac-pic aligned, or talairach dicom files during mri_convert. Could this be causing me problems?
I really appreciate all of the help. Apologies for my inexperience.
Jesse
On Fri, Dec 4, 2009 at 1:46 PM, Allison Stevens < astevens@nmr.mgh.harvard.edu> wrote:
It's a little bumpier than usual but ultimately you would have to look at the surfaces in tkmedit to determine whether these are errors. Allison
--
On Fri, 4 Dec 2009, Jesse Bledsoe wrote:
Hi experts,
Should I be concerned about the number of white matter errors in the attached tif? Is it normal or unusual to have this many white matter errors after reconstruction? It seems like discussions on editing white matter suggest there are usually only a handful, if any errors to the wm.mgz.
Thanks so much,
Jesse
Hi Jesse,
you can't tell from an inflated surface what wm needs editing. You need to look at the surface overlaid on the volume in tkmedit for that.
cheers Bruce On Fri, 4 Dec 2009, Jesse Bledsoe wrote:
Hi experts,
Should I be concerned about the number of white matter errors in the attached tif? Is it normal or unusual to have this many white matter errors after reconstruction? It seems like discussions on editing white matter suggest there are usually only a handful, if any errors to the wm.mgz.
Thanks so much,
Jesse
freesurfer@nmr.mgh.harvard.edu
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Allison Stevens -
Bruce Fischl -
Jesse Bledsoe