Message: 1 Date: Sat, 17 Oct 2015 11:09:08 -0400 (EDT) From: Bruce Fischl fischl@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all pipeline for (sub-millimeter) 7T data To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Message-ID: alpine.LRH.2.20.1510171108090.29644@gate.nmr.mgh.harvard.edu Content-Type: text/plain; charset="windows-1252"
High resolution fMRI has always been supported. V6 beta has better support for high-resolution structurals. If your fMRI is higher than 1mm isotropic then having higher res structurals (and hence denser cortical meshes) might be useful
Is there a way to obtain denser cortical meshes using the standard FreeSurfer 5.3.0 reconstruction pipeline with 1mm anatomical data? I looked for a flag, but didn't find one..
-- Kendrick Kay, PhD Assistant Professor Center for Magnetic Resonance Research University of Minnesota, Twin Cities Web: http://cvnlab.net http://cvnlab.net/ E-mail: kay@umn.edu mailto:kay@umn.edu Cell: 510-206-1059 Skype: kendrickkay
Hi Kendrick
yes, we've played with different things for generating denser mesh representation. Jon (ccd) I think is the expert. Or maybe I hope he is? I can't remember the details, but hopefully he can Bruce On Sat, 17 Oct 2015, Kendrick Kay wrote:
Message: 1 Date: Sat, 17 Oct 2015 11:09:08 -0400 (EDT) From: Bruce Fischl <fischl@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] recon-all pipeline for (sub-millimeter) 7T data To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Message-ID: <alpine.LRH.2.20.1510171108090.29644@gate.nmr.mgh.harvard.edu> Content-Type: text/plain; charset="windows-1252" High resolution fMRI has always been supported. V6 beta has better support for high-resolution structurals. If your fMRI is higher than 1mm isotropic then having higher res structurals (and hence denser cortical meshes) might be usefulIs there a way to obtain denser cortical meshes using the standard FreeSurfer 5.3.0 reconstruction pipeline with 1mm anatomical data? I looked for a flag, but didn't find one..
-- Kendrick Kay, PhD Assistant Professor Center for Magnetic Resonance Research University of Minnesota, Twin Cities Web: http://cvnlab.net E-mail: kay@umn.edu Cell: 510-206-1059 Skype: kendrickkay
yep, i wrote a command a while back that just refines a mesh. the command name is mris_mesh_subdivide and has options for both approximating and interpolating schemes. if it is not distributed i would be happy to post the binaries.
-jon
On Sat, 17 Oct 2015, Bruce Fischl wrote:
Hi Kendrick
yes, we've played with different things for generating denser mesh representation. Jon (ccd) I think is the expert. Or maybe I hope he is? I can't remember the details, but hopefully he can Bruce On Sat, 17 Oct 2015, Kendrick Kay wrote:
Message: 1 Date: Sat, 17 Oct 2015 11:09:08 -0400 (EDT) From: Bruce Fischl <fischl@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] recon-all pipeline for (sub-millimeter) 7T data To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Message-ID: <alpine.LRH.2.20.1510171108090.29644@gate.nmr.mgh.harvard.edu> Content-Type: text/plain; charset="windows-1252" High resolution fMRI has always been supported. V6 beta has bettersupport for high-resolution structurals. If your fMRI is higher than 1mm isotropic then having higher res structurals (and hence denser cortical meshes) might be useful
Is there a way to obtain denser cortical meshes using the standard FreeSurfer 5.3.0 reconstruction pipeline with 1mm anatomical data? I looked for a flag, but didn't find one..
-- Kendrick Kay, PhD Assistant Professor Center for Magnetic Resonance Research University of Minnesota, Twin Cities Web: http://cvnlab.net E-mail: kay@umn.edu Cell: 510-206-1059 Skype: kendrickkay
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
Jonathan Polimeni -
Kendrick Kay