<!-- README.md is generated from README.Rmd. Please edit that file -->
ggtree: an R package for visualization and annotation of phylogenetic trees with their covariates and other associated data
===========================================================================================================================
<img src="https://raw.githubusercontent.com/jotsetung/BioC-stickers/master/ggtree/ggtree.png" height="128", align="right" />
[](https://bioconductor.org/packages/ggtree) [](https://github.com/ggtree) [](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#since) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree)
[](http://www.repostatus.org/#active) [](https://codecov.io/gh/GuangchuangYu/ggtree) [](https://github.com/GuangchuangYu/ggtree/commits/master) [](https://github.com/GuangchuangYu/ggtree/network) [](https://github.com/GuangchuangYu/ggtree/stargazers) [](https://awesome-r.com/#awesome-r-graphic-displays)
[](https://www.bioconductor.org/packages/devel/bioc/html/ggtree.html#archives) [](https://bioconductor.org/checkResults/devel/bioc-LATEST/ggtree/) [](https://travis-ci.org/GuangchuangYu/ggtree) [](https://ci.appveyor.com/project/GuangchuangYu/ggtree) [](http://bioconda.github.io/recipes/bioconductor-ggtree/README.html)
The `ggtree` package extending the `ggplot2` package. It based on grammar of graphics and takes all the good parts of `ggplot2`. `ggtree` is designed for not only viewing phylogenetic tree but also displaying annotation data on the tree.
[](https://twitter.com/intent/tweet?hashtags=ggtree&url=http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12628/abstract&screen_name=guangchuangyu)
------------------------------------------------------------------------
Please cite the following article when using `ggtree`:
**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.
[](http://dx.doi.org/10.1111/2041-210X.12628) [](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627) [](https://www.altmetric.com/details/10533079)
------------------------------------------------------------------------
For details, please visit our project website, <https://guangchuangyu.github.io/ggtree>.
- [Documentation](https://guangchuangyu.github.io/ggtree/documentation/)
- [FAQ](https://guangchuangyu.github.io/ggtree/faq/)
- [Featured Articles](https://guangchuangyu.github.io/ggtree/featuredArticles/)
- [Feedback](https://guangchuangyu.github.io/ggtree/#feedback)
### Citation
[](https://scholar.google.com.hk/scholar?oi=bibs&hl=en&cites=7268358477862164627)
+--+---------+---------+---------+---------+---------+---+
7 + * +
| |
6 + +
| |
5 + +
| |
4 + +
3 + +
| |
2 + +
| |
1 + * +
+--+---------+---------+---------+---------+---------+---+
2016 2016.2 2016.4 2016.6 2016.8 2017
### Download stats
[](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree) [](https://bioconductor.org/packages/stats/bioc/ggtree)
++-------------------+-------------------+--------------------+-------------------+-----------+
| * |
| * |
| * |
| * * |
| |
1500 + +
| |
| * |
| * |
| * * * |
1000 + * * +
| |
| * * |
| * |
| * * * |
| |
500 + * +
| * * |
| * |
| * |
| |
0 + * * * +
++-------------------+-------------------+--------------------+-------------------+-----------+
2015 2015.5 2016 2016.5 2017
