Quick Start

This section provides walkthroughs and reference guides for getting started with BioNeuralNet.

• Quick Start Guide: An end-to-end notebook walkthrough using a synthetic demo dataset, covering network construction, subgraph detection, and disease prediction.

• Quick Start for Biologists: A user-friendly walkthrough for members of the community without a developer background.

• Data Decision Framework: A structured, stage-by-stage parameter reference and decision guide grounded in empirical results from the TCGA and COPD workflows.

Quick Start

• Quick Start Guide
  • Load Demo Dataset
  • Constructing a Multi-omics Network
  • Example 1: SmCCNet 2.0
  • Network Quality Assessment
  • Phenotype-Driven Subgraph Detection
  • Subgraph Visualization
  • Disease Classification with DPMON
  • DPMON: End-to-End Disease Prediction
  • Latent Space Visualization
  • Summary
• Quick Start for Biologists
• Data Decision Framework
  • Stage 0: Load, Align, and Inspect Your Data
  • Stage 1: Feature Selection
  • Stage 2: Network Construction
  • Stage 3: Network Quality Assessment
  • Stage 4: Downstream Task Configuration
  • Summary: Quick-Reference Recipe Table
  • References