Getting Started

Metagenomic sequencing (mNGS): introduction and lab setup

Introduction to Illumina sequencing and data analysis for mNGS using CZ ID

A guide to BLAST

Study Design

mNGS: study design and sample preparation

Metagenomic next-generation sequencing (mNGS) protocols

Metagenomic next-generation sequencing (mNGS) protocols

Library Preparation

  • Library QC

Enrichment and depletion methods

Overview

FLASH protocol

FLASH

DASH protocol

DASH publication

Guide RNA transcription protocol for FLASH and DASH

Sequencing

iSeq loading guide

MiSeq loading guide

Quality Control

Sample QC

Sequencing Run QC

Analysis

CZ ID: The free, cloud-based metagenomics platform for researchers

CZ GenEpi: An open source, free, no-code genomic epidemiology analysis platform for public health

Additional Materials

How to make your own SPRI beads

Sequencing SARS-CoV-2 for public health laboratories

Scaling sequencing

A guide to BLAST