README.md

Brain Network Parcellation in R

Bundle cortical brain network/parcellation that are publicly available in a convenient form to use in R

• https://www.lead-dbs.org/helpsupport/knowledge-base/atlasesresources/cortical-atlas-parcellations-mni-space/
• aging parcellation: https://github.com/hldeepblue/aging_parcellation

1. Collect all the brain parcellation/atlas in different formats

• use cifti, gifti pacakges
• Gordon 333 (fs_LR)
• Power 2011 (fs_LR)
• Schafer
• Yeo?
• Chan 2014
• Han 2018 - 5 age groups

2. Make a function that reads in gifti/cifti of data + parcellation and outputs corr-matrix

• Look into portion of R-for-brain-network repo
  • cii2mat.R, gii2mat.R
  • Use the above function within a wrapper to use the default atlases?

3. How about volumes?

• Use oro.nifti or Rnifti
• MNI based atlas? + Power 2011 coordinates are in MNI, create sepheres in 333? + Han 2018 has NIFTI files for 5 age groups
• FreeSurfer native-space based segmentation + The function has to take in a segmentation files in mgz format?