scglue-unpaired-multiomics-integration

What problem does it solve?

scGLUE enables end-to-end integration of unpaired single-cell RNA and ATAC data using a guidance graph to reveal regulatory relationships and shared cellular structure.

Core Features & Use Cases

• Unpaired multi-omics alignment using a guidance graph to map features across modalities
• Cis-regulatory inference and TF-target network construction from integrated embeddings
• Flexible graph extensions (e.g., 150kb windows, Hi-C/eQTL integration) for regulatory discovery
• Joint cell embeddings and feature embeddings suitable for downstream analyses and visualization
• Use cases include unpaired data integration, regulatory inference validation, and cross-modality GRN construction

Quick Start

Run scGLUE on unpaired scRNA and scATAC data to generate integrated embeddings and regulatory links.