ST_CDE - NIH Common Data Elements Analysis & Navigation

A comprehensive web-based analysis and navigation system for the NIH Common Data Elements (CDE) Repository containing 22,743+ data elements. This project provides interactive tools to explore, analyze, and navigate complex healthcare metadata following ISO 11179 standards.

Features

• Depth Analysis: Hierarchical depth visualization with logarithmic scale charts and deepest path identification
• Source Analysis: Steward organization tracking across multiple data locations with hover tooltips
• Types Analysis: Classification type analysis with depth tracking, parent-child relationships, and structure path analysis
• ISO 11179 Navigation: Component-based navigation (Object Class, Property, Data Element Concept, Value Domain)
• Web-Based Query Tools: Intuitive interfaces for researchers and healthcare professionals

Requirements

• Python 3.x (Python 3.6 or higher recommended)
• Python standard library only for the server
• Modern web browser for the analysis interfaces

Usage

1. Start the server:

   python3 server.py

2. Open your browser and navigate to:

   http://localhost:9999
   

3. Navigate through the analysis pages:

   • Depth Analysis (/depth) - View hierarchical depth statistics
   • Source Analysis (/sources) - Explore data sources and stewards
   • Types Analysis (/types) - Analyze element types and classifications
   • ISO 11179 Navigation (/iso11179) - Navigate by ISO 11179 components

Pre-computation Scripts

Run these scripts to pre-compute analysis data for faster page loads:

python3 precompute_depth.py      # Depth analysis data
python3 precompute_sources.py     # Source analysis data
python3 precompute_types.py      # Types analysis data
python3 precompute_structure.py  # Structure analysis data
python3 precompute_iso11179.py   # ISO 11179 component data

File Structure

• server.py - Python HTTP server serving static files and JSON data
• index.html - Main dashboard with links to analysis pages
• depth_analysis.html - Depth analysis interface
• source_analysis.html - Source analysis interface
• types_analysis.html - Types analysis interface
• iso11179_navigation.html - ISO 11179 component navigation
• precompute_*.py - Scripts to pre-compute analysis data
• *_analysis_data.json - Pre-computed analysis results

Server Endpoints

• / - Main dashboard
• /depth - Depth analysis page
• /sources - Source analysis page
• /types - Types analysis page
• /iso11179 - ISO 11179 navigation page
• /data - Raw JSON data endpoint
• /depth_data - Pre-computed depth analysis data
• /source_analysis_data.json - Source analysis data
• /types_analysis_data.json - Types analysis data
• /structure_analysis_data.json - Structure analysis data
• /iso11179_analysis_data.json - ISO 11179 component data

Technologies

• Backend: Python (http.server, json, collections)
• Frontend: HTML5, CSS3, JavaScript, Chart.js, D3.js
• Data Processing: Python with defaultdict, recursive algorithms
• Standards: ISO 11179 metadata registry standard