you can use gcatrain (and jkgcatrain for testing) if you are using v6

Hi Ramesh

if you have segmentations in our aseg format (or edited asegs for that matter if you find them not accurate enough), you should be able to use mri_ca_train to genenerate a new .gca file and apply it to your subjects. Read the help and wiki and see if you can make it work, and let us knof i you have any issues. There are also surface-based atlases, but I suspect thos are a lot less likely to be biased by brain shape (since we map to a sphere anyway)

cheers
Bruce
On Fri, 12 Jan 2018, Ramesh Babu wrote:

Dear Bruce,
Thank you for your prompt response. I have 2 groups & 40 subjects in each groups in my study. I am
using freesurfer and various other software for analysis. I found that the template available for
registration either western or Chinese. There is no template available for Indian brain population.
Therefore we want to develop a template specific to our population. And we have created templates
using different software and want to compare the result with default template (western brain
template) and our template. I need your help how to use this template in freesurfer. As you
mentioned in the previous mail I will try with training utility (mri_ca_train). Can I get any user
guide to know details about it?

Thank you
Ramesh

On Thu, Jan 11, 2018 at 11:07 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
      Hi Ramesh

      what are you trying to achieve? Our segmentation tools use their own format as they need
      information not contained in most standard images, so it won't be easy to get it into
      that format unless you use our training utility (mri_ca_train)

      cheers
      Bruce
      On Thu, 11 Jan 2018, Ramesh Babu wrote:

            Dear experts, 
            I have analysed T1 data using Freesurfer. Now we have created atlas,
            template & tissue probability
            map using different methods and softwares. I need your help to use template
            in freesufer, so that we
            can compare with default template and our template. Please help me to put
            these images in
            appropriate folders in Freesurfer.


            Thank you 
            RB



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