hands-on tutorial

Hands-on for 'Genome Assembly of MRSA using Oxford Nanopore MinION Data' tutorial

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The questions this addresses are:
- How to check the quality of the MinION data?
- How to perform an assembly with MinION data?
- What species do I have and what is its sequence type?
- Which resistance genes are on my genome?
- Where are the genes located on my genome?

The objectives are:
- Assess your data on quality and quantity
- Assemble a genome
- Assess your assembly quality
- Assess presence of antimicrobial resistance genes
- Perform a species identification and MLST typing
- Search for resistance genes on the assembly
- Find a gene on your genome using Prokka + JBrowse

Licence: Creative Commons Attribution 4.0 International

Keywords: assembly, nanopore, assembly, amr

Target audience: Students

Resource type: hands-on tutorial

Authors: Avans Hogeschool, Bazante Sanders, Helena Rasche, Miaomiao Zhou, Saskia Hiltemann

Contributors: Avans Hogeschool, Bazante Sanders, Helena Rasche, Miaomiao Zhou, Saskia Hiltemann

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