I see. Usually we start with a sphere, and create a sphere.reg for a bunch of subjects, then remake the template with those

Bruce
On Tue, 3 Sep 2013, David Romano wrote:

Hi Bruce,

The workflow that I mentioned from the wiki is for creating a new template
in the absence of any ?.sphere.reg files;  here's relevant language from the
webpage:

----------------
"Creating a registration template from scratch (GW)

(This section reports on what I (GW) have learned of the registration
process from Bruce Fischl. and Doug Greve, along with reading the source
code. I have not actually tried it.)

The process of creating a template involves calculating a "mean" (across
subjects) pattern of curvature-related values, along with the variance of
these variables. This task is performed by program mris_make_template.
However, mris_make_template expects the input subjects to be already aligned
(ie: already have ?h.sphere.reg files). This of course will not be the case
if you are about to create a template!"
----------------

This is context for my question.

Thanks,
David



On Tue, Sep 3, 2013 at 3:50 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu>
wrote:
      Hi David

      usually you need a ?h.sphere.reg as the ?h.sphere files are in
      (arbitrary) spherical coordinates, while the ?h.sphere.reg ones
      are in registered ones

      cheers
      Bruce

      On Tue, 3 Sep 2013, David Romano wrote:

            Hi everyone,

            If I only have lh.sphere and lh.sulc files for each
            of collection of
            subjects, would this be enough information to
            generate a template for
            registering further subjects?  

            I was thinking of trying to follow the workflow
            described on the page:

                 
            https://surfer.nmr.mgh.harvard.edu/fswiki/SurfaceRegAndTemplates

            (in the section titled "Creating a registration
            template from scratch
            (GW)"), but wasn't sure whether more than just
            native spherical coordinates
            and convexity information would be implicitly
            required by the
            mris_make_template command. (The "Positional
            Arguments" table that appears
            on the page:

                
            https://surfer.nmr.mgh.harvard.edu/fswiki/mris_make_template

            only asks explicitly for references to the
            hemisphere data for a collection
            of subjects.)

            Thanks in advance for you help,
            David Romano

            (P.S.  There's also appers to be a typo in the
            "Positional Arguments" table
            I mentioned above:  In the description section for
            position 2, the {hemi}
            and {sphere_name} values seem to be reversed.)












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