You can use mri_convert aseg.mgz --erode-seg 1 aseg.e1.mgz and visualze aseg.e1.mgz vs aesg.mgz you can use aseg.e1.mgz as input to mri_segstats (and turn off the erode)
On 04/15/2016 11:08 AM, Elijah Mak wrote: > > Hi Doug, > > I have pasted the previous emails below. I have computed mri_segstats > to extract the FA and MD from resampled aparc+aseg.mgz in diffusion > space. -seg-erode 1 was performed during mri_segstats. Now, I will > like to visually inspect the results of that erosion for the left and > right hippocampal structures. Is there anyway I can do that and > compare that against the uneroded hippocampus? > > I don't think mri_segstats -seg-erode 1 produce any volumetric > outputs so I am not sure. > > Thanks. > > Best Wishes, > > Elijah > > > Douglas N Greve > <http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=from:%22Douglas+N+Greve%22> > > Mon, 11 Apr 2016 08:11:06 -0700 > <http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=date:20160411> > > You can load it as an overlay in freeview make sure to specify the > registration file as that compted for the DTI. Also make sure to set > the threshold to something like 0.5 > On 04/11/2016 09:41 AM, Elijah Mak wrote: > Hi Freesurfer Community, > > > I have performed -seg-erode 1 during mri_segstats on resampled > > subcortical strutures (T1 to FA/MD). Can I view the eroded masks in T1 > > anatomical space to visually inspect whether PVE has been adequately > > accounted for? > > Thank you. > > Best Wishes, > Elijah > > > > > > _______________________________________________ > 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 gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ 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.
