Hi Doug, Yes, for the aseg they are. But not for the hippocampal subfields: left and right have the same color coding. I am creating one segmentation, including left and right hippocampal subfields and aparc, for partial volume correction. Any idea how I can make the labels for the hippocampal subfields different (freesurfer version 6)?
Thanks Heidi On 10/27/15, 4:32 PM, "Douglas Greve" <gr...@nmr.mgh.harvard.edu> wrote: >The indices should be different. Eg, 17 is left hippo, 53 is right >hippo. If you click on them in freeview and different labels appear, >then FS knows they are different > >On 10/24/15 9:29 PM, Jacobs H (NP) wrote: >> 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 >> >> > >_______________________________________________ >Freesurfer mailing list >Freesurfer@nmr.mgh.harvard.edu >https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
