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Current methods struggle to reconstruct and visualize the genomic relationships of large numbers of bacterial genomes. GrapeTree facilitates the analyses of large numbers of allelic profiles by a static "GrapeTree Layout" algorithm that supports interactive visualizations of large trees within a web browser window. GrapeTree also implements a novel minimum spanning tree algorithm (MSTree V2) to reconstruct genetic relationships despite high levels of missing data. GrapeTree is a stand-alone package for investigating phylogenetic trees plus associated metadata and is also integrated into EnteroBase to facilitate cutting edge navigation of genomic relationships among bacterial pathogens.

Original publication

DOI

10.1101/gr.232397.117

Type

Journal article

Journal

Genome Res

Publication Date

09/2018

Volume

28

Pages

1395 - 1404

Keywords

Alleles, Bacteria, DNA Barcoding, Taxonomic, Genome, Bacterial, Phylogeny, Software