Re: [Freesurfer] Creating intermediate surfaces between white and pial?
External Email - Use Caution Hi Bruce, thanks, that's exactly what I was looking for! Best, Tim > On December 12, 2019 at 5:39 PM Bruce Fischl > wrote: > > > Hi Tim > > mris_expand -thickness ... > > should do the trick. If you specify -thickness it will read in the > ?h.thickness file and interpret the argument as a percentage of > thickness, which is what you want I think > > cheers > Bruce > > > On Thu, 12 Dec 2019, Tim Schäfer wrote: > > >External Email - Use Caution > > > > Dear FreeSurfer experts, > > > > I know that I can sample data from a certain depth between the white and > > pial surfaces, but is there any way to create an intermediate surface file > > (i.e., mesh)? > > > > I would like to create, e.g., a surface file that is at 10% of the distance > > between the white and pial surface. > > > > I had a look at mris_create_surface, but unless I misinterpreted the > > description of the command line arguments, it does not seem to be the > > proper tool for the job. > > > > Background: This is for visualization purposes. I would like to create a > > figure similar to Figure S1 from Bletsch et al. 2018 in tkmedit: > > https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fhbm.24230=hbm24230-sup-0002-suppinfo02.tiff > > > > Thanks for your time and all the best, > > > > > > Tim > > > > -- > > Dr. Tim Schäfer > > Postdoc Computational Neuroimaging > > Department of Child and Adolescent Psychiatry, Psychosomatics and > > Psychotherapy > > University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany > > > > ___ > > 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 -- Tim Schäfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Creating intermediate surfaces between white and pial?
Hi Tim mris_expand -thickness ... should do the trick. If you specify -thickness it will read in the ?h.thickness file and interpret the argument as a percentage of thickness, which is what you want I think cheers Bruce On Thu, 12 Dec 2019, Tim Schäfer wrote: External Email - Use Caution Dear FreeSurfer experts, I know that I can sample data from a certain depth between the white and pial surfaces, but is there any way to create an intermediate surface file (i.e., mesh)? I would like to create, e.g., a surface file that is at 10% of the distance between the white and pial surface. I had a look at mris_create_surface, but unless I misinterpreted the description of the command line arguments, it does not seem to be the proper tool for the job. Background: This is for visualization purposes. I would like to create a figure similar to Figure S1 from Bletsch et al. 2018 in tkmedit: https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fhbm.24230=hbm24230-sup-0002-suppinfo02.tiff Thanks for your time and all the best, Tim -- Dr. Tim Schäfer Postdoc Computational Neuroimaging Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany ___ 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] Creating intermediate surfaces between white and pial?
External Email - Use Caution Dear FreeSurfer experts, I know that I can sample data from a certain depth between the white and pial surfaces, but is there any way to create an intermediate surface file (i.e., mesh)? I would like to create, e.g., a surface file that is at 10% of the distance between the white and pial surface. I had a look at mris_create_surface, but unless I misinterpreted the description of the command line arguments, it does not seem to be the proper tool for the job. Background: This is for visualization purposes. I would like to create a figure similar to Figure S1 from Bletsch et al. 2018 in tkmedit: https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fhbm.24230=hbm24230-sup-0002-suppinfo02.tiff Thanks for your time and all the best, Tim -- Dr. Tim Schäfer Postdoc Computational Neuroimaging Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] creating intermediate surfaces
Hi all - Is there a way to create intermediate surfaces in FreeSurfer? By intermediate I mean some fraction between gray/white and pial. Cheers -=R -- Rudolph Pienaar, M.Eng, D.Eng / email: [EMAIL PROTECTED] MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging 149 (2301) 13th Street, Charlestown, MA 02129 USA ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] creating intermediate surfaces
yes, mris_expand will do it. cheers Bruce On Thu, 23 Oct 2008, Rudolph Pienaar wrote: Hi all - Is there a way to create intermediate surfaces in FreeSurfer? By intermediate I mean some fraction between gray/white and pial. Cheers -=R ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
