Abstract
Current methods struggle to reconstruct and visualise the genomic relationships of ≥100,000 bacterial genomes.
GrapeTree facilitates the analyses of allelic profiles from 10,000’s of core genomes within a web browser window.
GrapeTree implements a novel minimum spanning tree algorithm to reconstruct genetic relationships despite missing data together with a static “GrapeTree Layout” algorithm to render interactive visualisations of large trees.
GrapeTree is a stand-along package for investigating Newick trees plus associated metadata and is also integrated into EnteroBase to facilitate cutting edge navigation of genomic relationships among >160,000 genomes from bacterial pathogens.
The GrapeTree package was released under the GPL v3.0 Licence.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
Posted November 09, 2017.
GrapeTree: Visualization of core genomic relationships among 100,000 bacterial pathogens
