Re: [Freesurfer] no recon button

2016-05-03 Thread Burke,Sarah E
Is this information correct? > On May 2, 2016, at 3:55 PM, Burke,Sarah E wrote: > > https://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg38934.html > > > From: freesurfer-boun...@nmr.mgh.harvard.edu > on behalf of Douglas N Greve > > Sen

[Freesurfer] Joining the left and the right cortical surface

2016-05-03 Thread Vikash Gupta
Hey everyone, I was wondering, if there is a module in free surfer to join the left and the right cortical surfaces, i.e. the lh.pial and the rh.pial files. I would like to have a contiguous genus 0 cortical brain surface. Any help would be really appreciated. Thans Vikash ___

Re: [Freesurfer] surface-based spatial smoothing model

2016-05-03 Thread Francesca Strappini
Thank you! Is there a paper I can read as a reference? 2016-05-03 15:53 GMT+03:00 Bruce Fischl : > Hi Francesca > > what's the difference? They are both approximations of Gaussians on the > surface. We use iterative averaging which is a numerical approximation of > a surface-based Gaussian. > > c

Re: [Freesurfer] surface-based spatial smoothing model

2016-05-03 Thread Bruce Fischl
Hi Francesca what's the difference? They are both approximations of Gaussians on the surface. We use iterative averaging which is a numerical approximation of a surface-based Gaussian. cheers Bruce On Tue, 3 May 2016, Francesca Strappini wrote: > Hi all, > > I would like to know which model

Re: [Freesurfer] Freesurfer V6 beta

2016-05-03 Thread Bruce Fischl
Hi Tyson we are moving through our testing and hoping to get it out soon. Hard to say more definitively than that sorry Bruce On Mon, 2 May 2016, Francis Tyson Thomas wrote: > Hello Fresurfer admin! > I was looking for the v6 beta and it looks like it still hasn't been > released after it was

Re: [Freesurfer] Geodesic distance across hemispheres

2016-05-03 Thread Bruce Fischl
yes, that would work, but it's not something we have tools for. sorry Bruce On Mon, 2 May 2016, Seung-Goo KIM wrote: Dear freesurfer people, I haven’t noticed that computing geodesic distance between two points across hemispheres is not a trivial as I thought. There are many implementations

[Freesurfer] surface-based spatial smoothing model

2016-05-03 Thread Francesca Strappini
Hi all, I would like to know which model has been implemented for the surface-based spatial smoothing in Freesurfer (for example in mri_vol2surf). Heat kernel smoothing and/or diffusion smoothing? Thank you Best Francesca -- Francesca Strappini, Ph.D. Neurobiology Department Weizmann Institute

[Freesurfer] Global and lobar gyrification index

2016-05-03 Thread K. Wagstyl
Hi all, Is there a way to calculate total hemispheric and lobar values of gyrification index? Either through a freesurfer-based command or through calculating the convex hull areas independently? We've thought about averaging local gyrification index for the hemisphere but think that direct c

Re: [Freesurfer] Symmetric label on fsaverage

2016-05-03 Thread Alexandre Routier
Hello Douglas, Unfortunately, I didn't find the command mris_apply_reg in FreeSurfer 5.3. Is there anything to do to solve this problem ? Alex 2016-04-28 18:15 GMT+02:00 Douglas N Greve : > You can use mris_left_right_register, then use mris_apply_reg with the > --src-label option. I can't reme