Introduction | 1. Setup and Mock Data Generation | 2. Data Aggregation | 3. Extracting specific Metrics and Quality Control | 4. Dimensionality Reduction | 5. Differential Epigenetic Analysis | Session Information

Introduction | 1. Prepare Mock Multi-Omics Data | 1.1 Global Metadata | 1.2 Region Dictionary | 1.3 Simulate Omics Matrices | 2. Multi-Omics Integration | Mode A: Tri-Omics Integration (RNA + CpG + GpC) | Mode B: Dual Integration (RNA + CpG) | Mode C: Epigenetics Only Integration (CpG + GpC) | Session Information

Introduction | 1. Data Preparation | 2. Object Construction and QC | 3. Dimensionality Reduction | 4. Unsupervised Clustering | 5. Differential Expression Analysis (DEA) | 6. Trajectory Inference (Pseudotime) | Session Information

Introduction | 1. Single-Cell RNA Visualization | 1.1 Quality Control Plot | 1.2 Dimensionality Reduction Plot | 1.3 Volcano Plot for DEA | 1.4 Trajectory & Pseudotime Plot | 2. Epigenetic Visualization | 2.1 Epigenetic Landscape (Ridge Plot) | 2.2 Dimensionality Reduction for Epigenetics | 2.3 Epigenetic Volcano Plot | 3. Multi-Omics Integration Plots | 3.1 Omics Correlation Matrix | 3.2 Pairwise Scatter Plots | Session Information