Version Compatibility

Reference examples tested with: MiXCR 4.6+, VDJtools 1.2.1+, scanpy 1.10+

Before using code patterns, verify installed versions match. If versions differ:

• Python: pip show <package> then help(module.function) to check signatures

If code throws ImportError, AttributeError, or TypeError, introspect the installed package and adapt the example to match the actual API rather than retrying.

scirpy Analysis

"Analyze single-cell TCR/BCR with gene expression" → Integrate immune receptor clonotype data with scRNA-seq gene expression for joint analysis of clonal expansion and cell state.

• Python: scirpy.io.read_10x_vdj(), scirpy.tl.clonal_expansion(), scirpy.tl.clonotype_network()

Load VDJ Data

Goal: Import single-cell VDJ annotations and integrate them with an existing scRNA-seq AnnData object.