Hi Joshua, The version of the hippocampal subfield segmentation routines currently in FreeSurfer will only work out of the box on the usual FreeSurfer-resampled 1mm isotropic data. If you are technically skilled, it should be possible to tweak things to make it work on other data (we don't assume specific contrast properties and/or acquisition sequences in the actual subfield segmentation algorithm). We have a Matlab version of the code as well that might be a lot easier to play with - please let me know if you're interested in that.
Koen On Fri, Oct 14, 2011 at 1:46 PM, Joshua Lee <jki...@ucdavis.edu> wrote: > Dear Experts, > > I've been collecting hi-res hippocampal scans with a 32 ch coil on a 3T > Siemens Trio to manually segment hippocampal subfields. However, I wonder > whether the protocol is appropriate for use with the new Freesurfer subfield > segmentation tool. > > Specifically, our hi-res scan does not capture the entire brain, rather it > acquires slices perpendicular to the long axis just for the length of the > long axis axis. Can this scan be used for the new subfield > auto-segmentation? Or does it require a whole-brain acquisition? > > We do acquire a 1 mm isotropic whole brain MPRage, but... > > Thanks for any info, > Joshua > > > _______________________________________________ > 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. > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
