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jameshadfield / phandango

an interactive viewer for populations of bacterial genomes linked by a phylogeny
http://phandango.net
MIT License
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Gubbins output colors #136

Closed maguileraf closed 3 years ago

maguileraf commented 3 years ago

Hello,

What do the red and blue represent when plotting the output from Gubbins?

Thank you.

jameshadfield commented 3 years ago

Blue represents recombination blocks identified at a leaf (terminal node) whereas red indicates blocks identified at internal nodes and thus inherited by multiple samples. See https://github.com/jameshadfield/phandango/wiki/How%20To%20Use#genomic-data for more. Colours chosen for consistency with https://science.sciencemag.org/content/331/6016/430