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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....
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
Hi Tim
mris_expand -thickness ...
should do the trick. If you specify -thickness it will read in the ?h.thickness file and interpret the <mm> 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 CautionDear 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....
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
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Hi Bruce,
thanks, that's exactly what I was looking for!
Best,
Tim
On December 12, 2019 at 5:39 PM Bruce Fischl fischl@nmr.mgh.harvard.edu 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 <mm> 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 CautionDear 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....
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@nmr.mgh.harvard.edu
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Bruce Fischl -
Tim Schäfer