Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree | Zendy

Guangchuang Yu | Zendy; Tommy TsanYuk Lam | Zendy; Huachen Zhu | Zendy; Yi Guan | Zendy

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Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree

Author(s) -

Guangchuang Yu,

Tommy TsanYuk Lam,

Huachen Zhu,

Yi Guan

Publication year - 2018

Publication title -

molecular biology and evolution

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 6.637

H-Index - 218

eISSN - 1537-1719

pISSN - 0737-4038

DOI - 10.1093/molbev/msy194

Subject(s) - phylogenetic tree , biology , phylogenetics , tree (set theory) , visualization , context (archaeology) , bioconductor , data visualization , r package , evolutionary biology , computer science , data mining , paleontology , mathematics , genetics , computational science , combinatorics , gene

Ggtree is a comprehensive R package for visualizing and annotating phylogenetic trees with associated data. It can also map and visualize associated external data on phylogenies with two general methods. Method 1 allows external data to be mapped on the tree structure and used as visual characteristic in tree and data visualization. Method 2 plots the data with the tree side by side using different geometric functions after reordering the data based on the tree structure. These two methods integrate data with phylogeny for further exploration and comparison in the evolutionary biology context. Ggtree is available from http://www.bioconductor.org/packages/ggtree.

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