MeV (Measles virus)

A collection of resources for whole genome sequencing and analysis of Measles virus (MeV)

Resources and documents

Background

amplicon-nf: Running the pipeline in EPI2ME

Using EPI2ME for running the ARTIC amplicon-nf pipeline without the commandline
link: /amplicon-nf/amplicon-nf-epi2me-sop.html

amplicon-nf: Viewing outputs of the pipeline in EPI2ME

Viewing outputs of the amplicon-nf pipeline in EPI2ME
link: /amplicon-nf/amplicon-nf-epi2me-outputs-guide.html

Measles virus genomic epidemiology

A primer on measles virus genomic epidemiology and why we do it
link: /viruses/mev/mev-background.html

Measles virus sequencing

A guide to sequencing for genomic epidemiology
link: /viruses/mev/mev-sequencing-guide.html

Setup guides

ARTIC bioinformatics environment setup

link: /pipelines/it-setup.html

Setting up and using EPI2ME for running the ARTIC amplicon-nf pipeline

link: /pipelines/epi2me-setup.html

User-interface pipelines using Epi2me

Running the ARTIC analysis pipelines using EPI2ME

link: /pipelines/epi2me-setup.html

Command line interface pipeline SOPs

Nanopore sequencing bioinformatics protocol

link: /pipelines/cli-bioinformatics-sop.html