Thanks for quick response Bruce. We will use the volume from ex-vivo stats..
Regarding the need to integrate the ex vivo one back into aparc+aseg. We noticed the entorhinal volume in aparc is larger than that in exvivo.stats. So do the extra entorhinal voxels in aparc need to be re-labelled as "unkown" or as "cortical-gray-matter"? We plan to make manual correction on aparc (when required): So would it be a good approach to use the entorhinal labels from exvivo.stats to guide the corrections on aparc ? In this case, the question is, what should the end-user re-label the extra entorhinal voxels as ? Thanks Mehul On Tue, Jan 29, 2013 at 6:02 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote: > Hi Mehul > > the entorhinal label in the aparc was drawn by Rahul based on gyral > landmarks. The one in the _exvivo.stats is based on being able to see the > layer II islands in ex vivo MRI and hence we believe it is more accurate. > Not sure why you need to integrate the ex vivo one back into the > aparc+aseg, can you clarify? > > cheers > Bruce > > > > On Tue, 29 Jan 2013, Mehul Sampat wrote: > > Hi Folks, >> I have a question about entorhinal cortex volume. The entorhinal cortex >> is listed in ?h.aparc.stats and ?h.entorhinal_exvivo.stats. In a previous >> post on >> the mailing list, it was mentioned that we should use the volume >> measurement from ?h.entorhinal_exvivo.stats. >> >> We would like to make manual corrections to the entorhinal cortex >> segmentation >> (when required). For this task I can create a entorhinal volume from >> ?h.entorhinal_exvivo.label >> using mri_label2vol >> >> This entorhinal volume will be different from the one in aparc+aseg.mgz >> >> My question is: >> Has anyone published any protocols to somehow combine the two entorhinal >> volumes ? >> >> Or is recommend to take the take the entorhinal volume created from >> ?h.entorhinal_exvivo.stats. >> and overlay it on norm.mgz and edit manually (when required). >> One limitation of this approach is that it would be hard to integrate >> this entorhinal volume back into >> aparc+aseg.mgz... >> >> Thanks >> Mehul >> >> >> >> >> On Wed, Dec 7, 2011 at 10:50 AM, Bruce Fischl <fis...@nmr.mgh.harvard.edu> >> wrote: >> Hi Catherine >> >> I guess I would recommend the ex vivo one since it is based >> explicitly on architecontics and not on guessing locations from folds. >> >> cheers >> Bruce >> >> >> On Wed, 7 Dec 2011, Cat Chong wrote: >> >> Hello experts, >> >> I am very new to freesurfer so please excuse my basic >> question: >> We want to get measurements of entorhinal cortex volumes on a >> group of >> people. I found these results listed in ?h.aparc.stats. >> I also noticed another ?h.entorhinal_exvivo.stats, with >> different results. >> Which should I use for a group analysis of entorhinal volume >> and surface >> area, and why are the results very different? >> >> very best regards, >> catherine >> >> >> >> >> ______________________________**_________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<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<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. >> >> >> >>
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