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  • Harvest: a suite of core-genome alignment and visualization tools

Harvest: a suite of core-genome alignment and visualization tools

https://harvest.readthedocs.io/en/latest/

Harvest is a suite of core-genome alignment and visualization tools for quickly analyzing thousands of intraspecific microbial genomes, including variant calls, recombination detection, and phylogenetic trees.

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Tools

  • Parsnp - Core-genome alignment and analysis
  • Gingr - Interactive visualization of alignments, trees and variants
  • HarvestTools - Archiving and postprocessing