cdr3clustering
Installation
SKILL.md
CDR3Clustering Process Configuration
Purpose
Cluster TCR/BCR clones by CDR3 sequences using GIANA or ClusTCR (both Faiss-based). Adds CDR3_Cluster column to metadata for clonotype analysis.
When to Use
- To identify groups of similar TCR/BCR clonotypes
- For analyzing TCR sequence convergence
- After ScRepCombiningExpression when TCR/BCR integrated with RNA
- For investigating public clonotypes across samples
- Before TESSA analysis for epitope specificity
Important: Only runs when VDJ input present (TCRData/BCRData columns in SampleInfo).