sc-multiome

What problem does it solve?

This Skill streamlines the complex process of integrating and analyzing multiple types of single-cell omics data, such as RNA and protein or RNA and ATAC, enabling a more comprehensive understanding of cellular states.

Core Features & Use Cases

• Multi-modal Integration: Supports technologies like CITE-seq, 10X Multiome, and SHARE-seq.
• Analysis Workflows: Implements Weighted Nearest Neighbor (WNN) analysis, MOFA+, and muon/MuData workflows.
• Visualization: Generates joint UMAPs and plots modality weights.
• Use Case: Analyze a CITE-seq dataset to simultaneously explore gene expression and surface protein levels, identifying distinct cell populations based on both modalities.

Quick Start

Run the sc-multiome skill on your processed multi-omics data file.