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ggtree: an R package for visualization of phylogenetic trees with their annotation data
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‘ggtree’ extends the ‘ggplot2’ plotting system which implemented the
grammar of graphics. ‘ggtree’ is designed for visualization and
annotation of phylogenetic trees and other tree-like structures with
their annotation data.
For details, please visit
<a href="https://yulab-smu.top/treedata-book/" class="uri">https://yulab-smu.top/treedata-book/</a>.
:writing\_hand: Authors
-----------------------
Guangchuang YU
School of Basic Medical Sciences, Southern Medical University
<a href="https://guangchuangyu.github.io" class="uri">https://guangchuangyu.github.io</a>
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If you use [ggtree](http://bioconductor.org/packages/ggtree) in
published research, please cite the most appropriate paper(s) from this
list:
1. **G Yu**. Using ggtree to visualize data on tree-like structures.
***Current Protocols in Bioinformatics***, 2020, 69:e96. doi:
[10.1002/cpbi.96](https://doi.org/10.1002/cpbi.96).
- [Source code and data to reproduce figures in the
article](https://github.com/GuangchuangYu/ggtree-current-protocols)
2. **G Yu**<sup>\*</sup>, TTY Lam, H Zhu, Y Guan<sup>\*</sup>. Two
methods for mapping and visualizing associated data on phylogeny
using ggtree. ***Molecular Biology and Evolution***, 2018,
35(2):3041-3043. doi:
[10.1093/molbev/msy194](https://doi.org/10.1093/molbev/msy194).
- [Source code to produce Supplementary
Material](https://github.com/GuangchuangYu/plotting_tree_with_data)
3. **G Yu**, DK Smith, H Zhu, Y Guan, TTY Lam<sup>\*</sup>. ggtree: an
R package for visualization and annotation of phylogenetic trees
with their covariates and other associated data. ***Methods in
Ecology and Evolution***. 2017, 8(1):28-36. doi:
[10.1111/2041-210X.12628](https://doi.org/10.1111/2041-210X.12628).
:sparkling\_heart: Contributing
-------------------------------
We welcome any contributions! By participating in this project you agree
to abide by the terms outlined in the [Contributor Code of
Conduct](CONDUCT.md).