Hi Freesurfers,
Some associates of mine are working on a pipeline that generates cortical parcellations and we are looking to compare its measurements to some measurements generated by the freesurfer pipeline. However, our pipeline parcellates broader regions which include several labels generated by the FS cortical parcellation process within each of our labels. What we need is to get a general idea of where every label generated by FS fits within the context of our broader labeling scheme.
SO, this may be an obvious question, but how might i be able to view an atlas image volume with the FS parcellation/labeling scheme applied to it in order to get a general idea of how the separate labeling schemes match up?
Thanks!
Ryan
If you've reconned a subject, you can use the aparc+aseg.mgz volume.
doug
Ryan Scotton wrote:
Hi Freesurfers,
Some associates of mine are working on a pipeline that generates cortical parcellations and we are looking to compare its measurements to some measurements generated by the freesurfer pipeline. However, our pipeline parcellates broader regions which include several labels generated by the FS cortical parcellation process within each of our labels. What we need is to get a general idea of where every label generated by FS fits within the context of our broader labeling scheme.
SO, this may be an obvious question, but how might i be able to view an atlas image volume with the FS parcellation/labeling scheme applied to it in order to get a general idea of how the separate labeling schemes match up?
Thanks!
Ryan
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi Doug,
I have reconned many subjects; the problem is that these subjects are 2-4 year olds and the scans do not always turn out ideally. It's hard for me to determine which of them contains a 'perfect' parcellation, which is why I was hoping I could use some sort of atlas template image that has already been parcellated appropriately in order to get the best idea of where each label lies. Is this an option?
Ryan
On Fri, Oct 24, 2008 at 12:26 PM, Doug Greve greve@nmr.mgh.harvard.eduwrote:
If you've reconned a subject, you can use the aparc+aseg.mgz volume.
doug
Ryan Scotton wrote:
Hi Freesurfers,
Some associates of mine are working on a pipeline that generates cortical parcellations and we are looking to compare its measurements to some measurements generated by the freesurfer pipeline. However, our pipeline parcellates broader regions which include several labels generated by the FS cortical parcellation process within each of our labels. What we need is to get a general idea of where every label generated by FS fits within the context of our broader labeling scheme.
SO, this may be an obvious question, but how might i be able to view an atlas image volume with the FS parcellation/labeling scheme applied to it in order to get a general idea of how the separate labeling schemes match up?
Thanks!
Ryan
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Centergreve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in:surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Ryan,
There is a sample subject named 'bert' included with freesurfer in the freesurfer/subjects dir that you could view to get an idea of a valid parcellation.
Nick
On Wed, 2008-10-29 at 11:10 -0400, Ryan Scotton wrote:
Hi Doug,
I have reconned many subjects; the problem is that these subjects are 2-4 year olds and the scans do not always turn out ideally. It's hard for me to determine which of them contains a 'perfect' parcellation, which is why I was hoping I could use some sort of atlas template image that has already been parcellated appropriately in order to get the best idea of where each label lies. Is this an option?
Ryan
On Fri, Oct 24, 2008 at 12:26 PM, Doug Greve greve@nmr.mgh.harvard.edu wrote: If you've reconned a subject, you can use the aparc+aseg.mgz volume.
doug Ryan Scotton wrote: > Hi Freesurfers, > > Some associates of mine are working on a pipeline that > generates cortical parcellations and we are looking to > compare its measurements to some measurements generated by > the freesurfer pipeline. However, our pipeline parcellates > broader regions which include several labels generated by > the FS cortical parcellation process within each of our > labels. What we need is to get a general idea of where > every label generated by FS fits within the context of our > broader labeling scheme. > > SO, this may be an obvious question, but how might i be able > to view an atlas image volume with the FS > parcellation/labeling scheme applied to it in order to get a > general idea of how the separate labeling schemes match up? > > Thanks! > > Ryan > > > ____________________________________________________________ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Doug Greve -
Nick Schmansky -
Ryan Scotton