• Univariate analysis - FSL, Nilearn
  • Condition contrasts
  • Betaseries estimation
  • Parametric modulation
• Functional coupling analysis - FSL, Nilearn
  • Seed-based
  • PPI
  • Betaseries - Python scripts
    • Mindstorm. betaseries (generic), betaseries-bids (for fMRIPrep output)
• Multivariate analysis - Nilearn, PyMVPA2 (this is deprecated though)
  • Pattern classification
  • Representational similarity analysis
  • Searchlight - Nilearn, Brainiak, PyMVPA2
    • Brainiak. Examples: Tesser.
• Group-level statistics - AFNI 3dFWHMx, 3dClustSim, 3dttest, FSL randomise
  • Cluster correction

Packages

• PyMVPA installation
• GLMsingle
• Nilearn

Example projects

• Tesser multivariate analysis of fMRIPrep preprocessed data

Resources

• Princeton Brainhack