scglue-complete

What problem does it solve?

This skill solves the challenge of implementing end-to-end GLUE-based integration for unpaired single-cell multi-omics data.

Core Features & Use Cases

• Comprehensive documentation: Full API references, tutorials, data processing workflows, and example pipelines for GLUE-based integration.
• End-to-end GLUE workflow: Configure datasets, train GLUE/PairedGLUE models, extract cell and feature embeddings, and evaluate integration quality.
• Downstream analyses: Guidance for regulatory inference and graph-based analyses using GLUE embeddings.
• Use Case: A researcher integrates scRNA-seq and scATAC-seq data to build cross-modal embeddings and infer regulatory interactions.

Quick Start

Clone the repository and start with the Getting Started guide in references/getting_started.md; then follow Stage 1 for preprocessing, Stage 2 for model training, and Stage 3 for regulatory inference.