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Cytoscape Integration

This section documents the Cytoscape integration and graph visualization services that the NDF Studio system depends on.

Overview

The NDF Studio system integrates with Cytoscape for:

  • Interactive graph visualization and exploration
  • Network analysis and visualization
  • Graph layout and styling
  • User interface for graph manipulation
  • Real-time graph updates and interactions

External Dependencies

Cytoscape Libraries and Services

  • Cytoscape.js: Core graph visualization library
  • Cytoscape.js Extensions: Additional functionality and plugins
  • Cytoscape.js Layouts: Graph layout algorithms
  • Cytoscape.js Styling: Visual styling and theming
  • Cytoscape.js Events: Interactive event handling

Core Visualization Features

  • Interactive Graphs: Click, drag, and zoom functionality
  • Layout Algorithms: Automatic graph layout and positioning
  • Visual Styling: Node and edge appearance customization
  • Animation: Smooth transitions and updates
  • Performance Optimization: Large graph handling

Integration Points

Frontend Integration

  1. Data Formatting: Converting NDF data to Cytoscape format
  2. Event Handling: Managing user interactions
  3. Real-time Updates: Synchronizing graph changes
  4. Styling: Applying visual themes and styles
  5. Performance: Optimizing for large datasets

Graph Operations

  • Node Creation/Deletion: Adding and removing nodes
  • Edge Management: Creating and modifying relationships
  • Layout Updates: Recalculating graph layouts
  • Selection: Highlighting and selecting graph elements
  • Filtering: Showing/hiding graph elements

Configuration

Cytoscape integration is configured through: - Layout algorithm selection - Visual styling and themes - Performance settings and optimizations - Event handling and interaction modes - Plugin and extension management

Features

Interactive Capabilities

  • Zoom and Pan: Navigation through large graphs
  • Node Selection: Click to select and highlight nodes
  • Edge Highlighting: Visualizing relationships
  • Context Menus: Right-click actions and options
  • Keyboard Shortcuts: Quick access to common actions

Visual Customization

  • Node Styling: Colors, shapes, sizes, and labels
  • Edge Styling: Line styles, colors, and thickness
  • Layout Options: Force-directed, hierarchical, and custom layouts
  • Animation: Smooth transitions and updates
  • Themes: Consistent visual styling across the application