BCR + GEX Tutorial Pipeline Outputs: Processed BCR tables and annotated Seurat object from tumor-draining lymph node and primary tumor of an ovarian cancer patient

Pipeline output files from the BCR + GEX Integration Tutorial, generated from the paired lymph node (P1_LN) and primary tumor (P1_PT) samples of one ovarian cancer patient originally published in Nathan et al. (2026, Immunity).

Files included:

• P1_LN_bcr_data.tsv -- cleaned, clone-annotated BCR table for the lymph node sample (Part 1 output)
• P1_PT_bcr_data.tsv -- cleaned, clone-annotated BCR table for the primary tumor sample (Part 1 output)
• integrated_S7_annotated.rds -- integrated Seurat object with cell type annotations across both samples (Part 2 output)

These files allow users to start the tutorial from any part without running earlier steps. The corresponding raw input files (Cell Ranger GEX and VDJ outputs) are available in a separate Zenodo deposit at https://zenodo.org/records/20323951. The tutorial is hosted at https://github.com/Part-coder-part-batman.

Raw sequencing data are available on GEO under accession GSE319733.