I am a Msc student in Neuroscience in Ege University, Turkey. I am doing shape analysis for amygdala. I could not find a template for amygdala. So,I would like to create template.
I have 30 amygdala in my population. First I run all the steps in SPHARM-PDM (SegPostProcess, GenParaMesh and ParaToSPHARMMesh).
After SegPostProcess I end up having 30 *_SegPost.nii files.
After GenParaMesh I end up having 30 *_para.vtk and 30 *_surp.vtk files.
After ParaToSPHARMMesh I end up having 30 *_MedialAxisScalars.csv, 30 *_SPHARM.coef, 30 *_SPHARM.vtk, 30 *_SPHARM_ellalign.coef, 30 *_SPHARM_ellalign.vtk and 30 *_SPHARMMedialAxis.vtk files.
I need a regTemplate and a flipTemplate. How can I create these two templates and which outcome files can I use while creating these templates?