cellxgene-census-annotation

What problem does it solve?

Transfers cell-type annotations from the CELLxGENE Census to query scRNA-seq data without downloading massive datasets, enabling rapid annotation from a rich reference.

Core Features & Use Cases

• Cloud-hosted access to >33M annotated cells with pre-computed embeddings (scVI, Geneformer) for label transfer.
• Reference-based tissue lookup and nearest-neighbor majority-vote annotation with TileDB value filters, plus cross-atlas vector search workflows.
• End-to-end workflow guidance for querying, filtering duplicates, and mapping predictions to query metadata.

Quick Start

Query Census with your scRNA-seq data to obtain cell-type annotations using precomputed embeddings without downloading large datasets.