There's also mri_surf2vol. It won't flood fill, but it will create a binary volume of the ribbon with --fillribbon
doug Yasunari Tosa wrote: > > Hi, Alex: > > We have a program called "mri_surfacemask", which uses the surface to > get the inside volume > covered by the surface. The outside is set to zero (the volume must be > UCHAR). > > If you need this, please let me know. > > Tosa > > Bruce Fischl wrote: > > >On Mon, 14 Feb 2005, Alex Wade wrote: > > > > > > > >>I have recently started to use FS to generate cortical surfaces for > >>boundary element modelling in EEG source localization. In particular I > >>would like to use the pial surface generated by FS. > >>I have three problems: > >> > >>1: I can only get FS to generate individual hemispheres. For the BEM, I > >>need a single, connected, mesh for the entire brain. Is there a way to > >>get this (perhaps by fooling FS into not disconnecting the hemispheres > >>early in the segmentation process)? > >> > >> > > > >sorry, no easy way to do this. > > > > > > > >>2: The white/gray boundary mesh is topologically correct (no bridges / > >>handles / holes etc..). Is the pial surface mesh also correct? > >> > >> > > > >yes, all the surfaces should have the same topology at the end (except the > >?h.qsphere, which you don't have to worry about) > > > > > > > >>3: Is there a way to generate the volume inside the pial surface? That > >>is - can I flood fill the pial surface in some way to extract the voxels > >>that lie inside it as 3d volume? > >> > >> > > > >inside the entire surface? Or just between pial and white? There is > >something to do the filling, but I can never remember what it is. Tosa: > >what's it called? > > > > > >cheers, > >Bruce > > > > > > > >>Many thanks > >> > >> > >>Alex > >> > >>A.R. Wade Ph.D. > >>Associate Scientist > >>The Smith-Kettlewell Eye Research Institute > >>2318 Fillmore Street > >>San Francisco, CA 94115 > >> > >>tel. 415 345 2083 > >>fax. 309 416 6533 > >> > >>_______________________________________________ > >>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 > > > > > > > > -- > Yasunari Tosa, Ph.D. Email: [EMAIL PROTECTED] > NMR Ctr, Mass. General Hospital TEL: 617-726-4050 > Building 149, 13th Street > Charlestown, MA 02129 > USA > > _______________________________________________ > 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 [EMAIL PROTECTED] Phone Number: 617-724-2358 Fax: 617-726-7422 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
