I think the resolution is important. The CA1 subfield is only about 2-2.5 mm thick after all.
If this is a feature request thread now, let me add that it would be nice if the actual training algorithm was integrated into Freesurfer. There is a lot of disagreement about the most appropriate subfield boundaries, and the ability to make custom training sets would be helpful. Right now there is little guidance on what kind of data-sets are appropriate to use with this algorithm. I am concerned that users are trying to segment subfields with older data-sets that probably aren't appropriate (e.g. 1.5 Tesla or 1.5 mm isotropic data). Josh On Tue, May 28, 2013 at 1:44 PM, Juan Eugenio Iglesias < igles...@nmr.mgh.harvard.edu> wrote: > Hi Josh, > as of now, it uses nu.mgz, which is conformed and bias field corrected > with N3. > Koen, do you think we should add a flag to change this? The algorithm is > pretty resolution-independent, and could certainly benefit from > higher-res data. > Cheers, > /Eugenio > > On Tue, 2013-05-28 at 13:34 -0700, Joshua Lee wrote: > > I have read that the hippo-subfield algorithm uses the aseg for > > initialization, and then uses the original MRI data. By original, does > > that mean it up-samples the conformed 1mm data to .5mm, or does that > > mean it takes the original original input (i.e. my 0.7 mm isotropic > > MPRAGE) and upsamples it to .5mm? > > > > Josh > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Juan Eugenio Iglesias, PhD > http://www.jeiglesias.com > igles...@nmr.mgh.harvard.edu > Athinoula A. Martinos Center for Biomedical Imaging > 149 Thirteenth Street, Suite 2301 > Charlestown, Massachusetts 2129 > U.S.A. > > > > > > 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. >
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