Template, space and atlas definitions
Template examples
Talairach space
MNI space variations 

Aligning your data to a template
3dQwarp
@SS_warper
autowarp.py
@auto_tlrc
manual Talairach

Hands-on with atlases
AFNI atlas definitions - AFNI_atlas_spaces.niml
whereami -show_atlases -show_spaces -show_templates
Atlas and template datasets in abin

Setting the main AFNI atlas for the GUI
  setenv AFNI_ATLAS_COLORS MNI_Glasser_HCP_v1.0 
AFNI GUI Seeing templates and atlases datasets
AFNI GUI Atlas features
AFNI GUI - Go to atlas location
AFNI GUI - Show atlas colors, Overlay See TT Atlas Regions
AFNI GUI - whereami
AFNI GUI - Draw Dataset (ROI colors)
AFNI GUI - Jump to MNI