User guide

Table of contents

• 1. Introduction: fmralign in a nutshell
  • 1.1. Functional alignment: handling functional variability
  • 1.2. Installing fmralign
• 2. Functional alignment: handling functional variability
  • 2.1. An introduction to functional alignment
    • 2.1.1. Inter subject variability in fMRI
    • 2.1.2. Functional alignment
  • 2.2. Functional alignment pipeline
    • 2.2.1. Local functional alignment
    • 2.2.2. Alignment methods on a region
    • 2.2.3. Comparing those methods on a region of interest
    • 2.2.4. References
• 3. Reference documentation
  • 3.1. fmralign.alignment.pairwise_alignment: Pairwise Alignment
    • 3.1.1. fmralign.alignment.pairwise_alignment.PairwiseAlignment
  • 3.2. fmralign.alignment.group_alignment: Group Alignment
    • 3.2.1. fmralign.alignment.group_alignment.GroupAlignment
  • 3.3. fmralign.methods: Alignment Methods
    • 3.3.1. fmralign.methods.Identity
    • 3.3.2. fmralign.methods.DetSRM
    • 3.3.3. fmralign.methods.Procrustes
    • 3.3.4. fmralign.methods.RidgeAlignment
    • 3.3.5. fmralign.methods.OptimalTransport
  • 3.4. fmralign.embeddings: Embedding Methods
    • 3.4.1. fmralign.embeddings.connectivity.get_connectivity_features
    • 3.4.2. fmralign.embeddings.parcellation.get_labels
    • 3.4.3. fmralign.embeddings.whole_brain.get_adjacency_from_mask