Repertoire diversity
Use this workflow to study TCR/BCR clonotypes, expansion, diversity, and overlap.
Research questions
- Which clonotypes are expanded or hyperexpanded?
- Are clones shared across samples?
- How do diversity metrics vary across disease or treatment groups?
- Which clone-state links connect VDJ and cell phenotype?
Suggested path
- Register a
vdjdataset. - Run
repertoire_analysis. - Review diversity, expansion, V/J usage, and overlap.
- Use disease workflows or interpretation to contextualize clone-state patterns.
Outputs to cite
- Shannon entropy
- inverse Simpson index
- clonal evenness
- top clonotypes
- shared clonotype fractions