Deeplex Myc-TB to FHIR pipeline

Contents:

• Overview
  • Directory structure
• Installation
  • Prerequisites
  • Setup
  • Setup (Docker)
• Data Processing
  • Main Workflow
  • Deeplex Excel Report Workflow
  • Upload to FHIR Server
  • Workflow Parameter
• Output Files
  • FHIR Genomic Bundle
  • Clinical Data Integration & Reporting
  • Drug Resistance Classification
  • Output Directory Structure
• FHIR Standards
  • Profiles Used
  • Standard Terminologies
• Version
  • Pipeline Version
  • Software Dependencies
  • Platform Information
  • v1.4.1
  • v1.4.0
  • References