Dear Experts, I checked the topology corrected surfaces in recon-all pipeline however i found it didn't do well as still there are many topology defects in the pial surfaces. I know how to correct them manually in freeview but are there any commands to recorrect these topological defects with for example variables ? ( shall i use mris_fix_topology or? ) Thank you.
On Sat, Sep 23, 2017 at 7:16 PM Fereshte <fereshte.ramez...@gmail.com> wrote: > Thank you. > Cheers > > On Sat, Sep 23, 2017 at 7:13 PM Bruce Fischl <fis...@nmr.mgh.harvard.edu> > wrote: > >> Segonne, F., Pacheco, J., Fischl, B., 2007. Geometrically accurate >> topology-correction of cortical surfaces using nonseparating loops. IEEE >> Trans Med Imaging 26, 518-529. >> >> Fischl, B., Liu, A., Dale, A.M., 2001. Automated manifold surgery: >> constructing geometrically accurate and topologically correct models of >> the human cerebral cortex. IEEE Trans Med Imaging 20, 70-80. >> >> Florent Ségonne,Eric GrimsonBruce Fischl, 2003. Topological Correction of >> Subcortical Segmentation >> MICCAI 2003: Medical Image Computing and Computer-Assisted Intervention - >> MICCAI 2003 pp 695-702 >> >> On Sat, 23 Sep >> 2017, Fereshte wrote: >> >> > Where can i find the details? >> > Thank you. >> > >> > On Sat, Sep 23, 2017 at 6:59 PM Bruce Fischl < >> fis...@nmr.mgh.harvard.edu> wrote: >> > Yes, that is part of the recon-all pipeline (actually we have 3 >> separate >> > topology correction procedures, two for the surface and one for >> the >> > volume) >> > >> > cheers >> > Bruce >> > On Sat, 23 Sep 2017, Fereshte wrote: >> > >> > > Dear FreeSurfer Developers Is it possible to correct >> topological defects automatically >> > in >> > > FreeSurfer? ( not correcting manually with Recon Edit) >> > > Thank you. >> > > >> > >_______________________________________________ >> > 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 >> >> >> 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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