[Freesurfer] Surface and Volume do not align in Slicer3

2010-07-16 Thread Steffen Bollmann
Dear freesurfer-mailinglist, I'm struggling since a few days with a problem I can't resolve: I ran recon-all without errors on my data and got the surfaces. Now I want to display surf/l(r)h.pial and mri/T1.mgz (or /orig/001.mgz) together to check the result in slicer3 (3.61.0). The problem oc

Re: [Freesurfer] Surface and Volume do not align in Slicer3

2010-07-17 Thread Steffen Bollmann
t; > cheers, > Bruce > > > On Fri, 16 > Jul 2010, Steffen Bollmann wrote: > > >> Dear freesurfer-mailinglist, >> >> >> I'm struggling since a few days with a problem I can't resolve: I ran >> recon-all without errors on my data and got

Re: [Freesurfer] Surface and Volume do not align in Slicer3

2010-07-18 Thread Steffen Bollmann
Thank you for your help Steffen > > Ruopeng > > On 7/17/10 5:26 AM, Steffen Bollmann wrote: >> Thank you so much for your quick response :) >>> presumably this problem does not occur in tkmedit or freeview? >> it works fine in tkmedit, but in freevie

[Freesurfer] surfaces to voxelspace

2011-02-08 Thread Steffen Bollmann
for RAS2Vox I can use the matrix I can obtain with mri_info ... but I cannot find a way from vertex-coordinates to RAS) Thank you for any hint Best Regards Steffen Bollmann ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https

Re: [Freesurfer] surfaces to voxelspace

2011-02-10 Thread Steffen Bollmann
e you to voxel space in the conformed > coordinates (not the raw input). Is this good enough? > doug > > Steffen Bollmann wrote: > >> Dear freesurfer experts, >> >> I would like to display freesurfer surfaces in the voxelspace of the >> original subject image us

Re: [Freesurfer] FreeSurfer coordinates

2011-02-14 Thread Steffen Bollmann
Am 14.02.2011 18:59, schrieb Douglas N Greve: > I have created some use cases on how to transform coordinates in one > space to those in another space (eg, a point on the surface to MNI305 > space or to the col, row, slice of a functional volume). Let me know if > you have any questions or have ot