MinION Pathogen Screening Pipeline
PMDA-compliant metagenomic analysis pipeline for xenotransplantation donor pig screening using Oxford Nanopore MinION Mk1D
Key Features
Comprehensive pathogen detection with enterprise-grade reliability and compliance
PMDA Compliance
Full coverage of 91 designated pathogens for xenotransplantation safety
PERV Detection
Critical detection of Porcine Endogenous Retroviruses (PERV-A, B, C)
Real-time Analysis
Streaming analysis capability with MinION sequencing
Cloud-Native
Serverless architecture on AWS (Lambda + EC2 on-demand)
Automated Workflow
End-to-end automation from basecalling to reporting
Quality Assured
Q30+ accuracy with duplex basecalling
Quick Links
Jump right into the documentation
Getting Started
Set up your development environment and run your first workflow
Architecture
Understand the system architecture and component interactions
4-Virus Surveillance
Real-time monitoring of Hantavirus, Polyomavirus, Spumavirus, and EEEV
API Reference
Complete API documentation with request/response examples
Technology Stack
Built with modern, production-ready technologies
Cloud & Infrastructure
- AWS Lambda + EC2 on-demand
- Step Functions workflow orchestration
- RDS Aurora Serverless PostgreSQL
- S3 + EFS for storage
Analysis Tools
- Oxford Nanopore Dorado (Duplex)
- Kraken2, BLAST, Diamond
- Minimap2, SAMtools
- Python 3.9+ analysis scripts
Ready to get started?
Follow our comprehensive guide to deploy your own MinION pathogen screening pipeline