Re: [Freesurfer] Template from scratch

2013-04-17 Thread Sophie Maingault
Yes but I don't want to create a registration template initialized with FS template (fsaverage). That's why I followed the part "creating a registration template from scratch" in this web page http://surfer.nmr.mgh.harvard.edu/fswiki/SurfaceRegAndTemplates But for annotation I will have to use apa

Re: [Freesurfer] Template from scratch

2013-04-17 Thread Douglas N Greve
I'd suggest running make_average_subject which will create tiffs for you as well as other useful template-specific maps (like an annotation). doug On 04/17/2013 05:48 AM, Sophie Maingault wrote: > Hi Experts, > > I'm creating a template from scratch. When I run mris_make_template is > it enough

Re: [Freesurfer] Template from scratch

2013-04-17 Thread Shantanu Ghosh
Hi, On Wed, April 17, 2013 10:27 am, Bruce Fischl wrote: > Hi Sophie > > the surface has to be a spherical one. Internally it will use the geometry > for some other surfaces like smoothwm, but the command line has to be a > spherical surfaces. Usually the first time with an individual subject you

Re: [Freesurfer] Template from scratch

2013-04-17 Thread Bruce Fischl
Hi Sophie the surface has to be a spherical one. Internally it will use the geometry for some other surfaces like smoothwm, but the command line has to be a spherical surfaces. Usually the first time with an individual subject you can use sphere, but if you are using multiple ones it should be

Re: [Freesurfer] Template from scratch

2013-04-17 Thread Bruce Fischl
Hi Sophie, if you want the template to represent corresponding points across your subjects you need to use sphere.reg cheers Bruce On Wed, 17 Apr 2013, Sophie Maingault wrote: Hi Experts, I'm creating a template from scratch. When I run mris_make_template is it enough to run mris_make_te