Are there any software for the alignment-free bacterial whole genome sequence similarity search and comparison?
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7.9 years ago
hrenchert747 ▴ 50

Are there any working software (s) for the alignment-free bacterial whole genome sequence similarity search and comparison? Thx.

wgs vcf alignment similarity sequencing • 1.5k views
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7.9 years ago
kloetzl ★ 1.1k

If all you want is a tree via evolutionary distances, there are plenty of tools available:

  • andi (shameless self-plug ☺)
  • spaced words
  • mash
  • co-phylog
  • kr, alfred, missmax, aff, csc, skrakov-phy, …
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