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Vibrio cholerae

This repository contains code for the analysis and visualization of the 7PET (7th Pandemic) lineage of Vibrio cholera.

  1. Weill: Nextstrain visualization of 7PET using an alignment from Weill et al (2019)
  2. Test: Building and visualizing a 7PET phylogeny using Bactopia and Nextstrain
  3. Fitness: ...