10. Templates & Atlases

• 10.1. AFNI Atlases
  • 10.1.1. Atlases and AFNI
  • 10.1.2. Re. Spaces
  • 10.1.3. Re. Transformations
  • 10.1.4. Re. Templates
  • 10.1.5. Re. Atlases
  • 10.1.6. Re. Environment Variables
  • 10.1.7. Distributed Atlases
• 10.2. How to make an atlas for yourself
  • 10.2.1. Overview
  • 10.2.2. Identifying and making regions
  • 10.2.3. Add the atlas-y-ness information to the dataset header
  • 10.2.4. Add the atlas to a NIML text file
  • 10.2.5. Update AFNI environment list (for GUI functionality)
  • 10.2.6. Add a template space to AFNI’s master list
  • 10.2.7. Add the template space to the environment variable
• 10.3. @SSwarper base volumes
  • 10.3.1. @SSwarper
  • 10.3.2. Reference templates for @SSwarper
  • 10.3.3. Example for making a reference dset: TT_N27_SSW.nii.gz
  • 10.3.4. Example for making a reference dset: HaskinsPeds_NL_template1.0_SSW.nii.gz
• 10.4. India Brain Template (IBT)
  • 10.4.1. Overview
• 10.5. Other templates and atlases
  • 10.5.1. Overview
  • 10.5.2. Links to additional datasets
• 10.6. List of atlases (and more) in afni_atlases_dist
  • 10.6.1. Atlases and masks in current afni_atlases_dist
  • 10.6.2. “Other” datasets in current afni_atlases_dist
  • 10.6.3. Older datasets, no longer distributed by default