seuratmap2ref

What problem does it solve?

This workflow maps query single-cell RNA datasets to high-quality reference atlases using Seurat's reference mapping framework. It enables label transfer, UMAP projection, and integration with reference annotations without modifying the original query data, supporting transferable analyses across tissues and atlas platforms.

Core Features & Use Cases

• Reference-based annotation: Transfer cell type labels and metadata from curated references (e.g., Azimuth PBMC) to the query.
• UMAP projection: Visualize query cells in the reference UMAP space for consistent interpretation.
• Non-destructive mapping: Preserve the query's expression data while augmenting it with reference-derived annotations.
• Transfer learning workflows: Use established atlases to annotate novel tissues or cell states with confidence.

Quick Start

Load your Seurat query object and a validated reference, configure the mapping parameters, and run the reference-mapping workflow to obtain transferred annotations.