hands-on tutorial

Build a viral consensus genome in your browser

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A 25-minute hands-on tutorial: map reads with minimap2, sort with samtools, build a consensus genome with ViralConsensus and verify it against a reference, all in the browser with nothing to install.

Licence: Creative Commons Attribution 4.0 International

Keywords: ViralConsensus, consensus genome, minimap2, samtools, viral genomics, workflow

Competency level: • Beginner

Resource type: hands-on tutorial

Learning objectives:

  • Build a consensus genome from mapped reads with ViralConsensus
  • Check a consensus against its reference with the NM and MD tags
  • See why poorly covered positions become N
  • Understand the depth, quality and frequency rules behind each consensus base

Authors: IEETA, University of Aveiro

External resources:
BioChef
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