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SARS-CoV-2 phylogenetic analysis

This workshop provides a brief overview of the basics of phylogenetic analysis, the spread and evolution of SARS-CoV-2, different nomenclature systems, and the use of web-tools.

Slides and materials

  • Basics of phylogenetic analysis, slides
  • Real-time tracking of SARS-CoV-2 spread and evolution
  • Exploring interactive phylogenies with Auspice
  • Strains, clades, lineages & variants
  • Interpreting phylogenies: pitfalls and uncertainty
  • Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020

Links and example data

  • nextclade: Clade assignment, sequence Q:, phylogenetic placement
  • cov-lineages: Lineage assignment and phylogenetic placement
  • Example data small
  • Example data large

Published

Sep 23, 2020

Category

teaching

Tags

  • bioinformatics 39
  • phylogenetics 37
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