Hi. Just one another related question: now that I was able to combine left and right hippocampal subfields with the aparc-aseg correctly, I noticed that the left and right hippocampal subfields have the same color labels and codes. What would be the best way to make sure that FreeSurfer understand that the left and right subfields (e.g. Left and right CA1) are different areas?
Thanks! Heidi On 10/21/15, 11:01 PM, "Jacobs H (NP)" <h.jac...@maastrichtuniversity.nl> wrote: >Thanks! Works wonderful! >Heidi > >On 10/21/15, 10:50 PM, "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >wrote: > >>If you want to remove them, you can use mri_binarize with the --replace >>option, replacing them with whatever you want. >> >>On 10/21/2015 04:38 PM, Jacobs H (NP) wrote: >>> Hi, >>> >>> I am trying to generate a segmentation file containing the aseg+aparc >>> but replacing the hippocampus with the hippocampal subfields. >>> With mergeseg I was able to merge the segmentations, but unfortunately >>> parts of the ³old² hippocampus (labeled as 17 and 53) are still in >>> there (as the area covered by the subfields is not 100% equal to the >>> hippocampus of the aseg). >>> How can I remove the remains of the old hippocampal labels? >>> >>> Many thanks! >>> Best >>> Heidi >>> >>> >>> _______________________________________________ >>> 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. >> > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
