Metagenomics network hub

The Network Hub is a resource for users of the CIDR clinical metagenomics workflow. Here, you can find SOPs, technical and FAQ/troubleshooting information regarding the implementation of metagenomics in a clinical evaluation/research setting.

Network Sites

Lab protocols

The lab protocol is a same-day DNA/RNA extraction, host-depletion and ONT library preparation workflow for delivery of preliminary sequencing results in < 6 hours.

Informatics workflow

The workflow covers the end-to-end processing of respiratory samples sequencing data, delivering a metageonomic report describing the microbial communities within them. The workflow leverages ONT Nanopore sequencing at its core to produce real-time sequencing data on the GridION platform. The informatics workflow runs locally alongside the sequencing experiment, producing reports as early as 30 minutes after commencing sequencing.

Reporting framework

This SOP is followed to parse results from the informatics workflow for application in a clinical evaluation service setting.