Function Reference • MOSAIC

Core Embedding

Run the MOSAIC spectral co-embedding pipeline

run_MOSAIC(): Run MOSAIC Multi-Omics Co-Embedding

find_elbow_kneedle(): Find the Elbow Point Using the Kneedle Algorithm

Differential Connectivity

Test for features with rewired regulatory networks across conditions

run_DC_test(): Run Differential Connectivity Test

calculate_empirical_pvalue(): Calculate Empirical P-Value

Subgroup Detection

Identify patient subtypes from feature module connectivity

compute_module_similarity(): Compute Module-Level Sample Similarity Matrix

find_partition_hclust(): Find a Balanced Two-Way Partition via Hierarchical Clustering

Simulation

Generate synthetic multi-modal data for benchmarking

simulate_multimodal_data(): Simulate Multi-Modal Single-Cell Data

Visualization

Plot eigenvalue spectra and sample embeddings

plot_eigen(): Plot Eigenvalue Scree Plot

plot_mds_cluster(): MDS Plot with Cluster Coloring