Author: Guangchuang Yu School of Basic Medical Sciences, Southern Medical University
Date: 2026-01-05

# ggtree: tree visualization and annotation

#### Guangchuang Yu
School of Basic Medical Sciences, Southern Medical University

#### 2026-01-05

# Vignette

Please go to https://yulab-smu.top/treedata-book/ for the full vignette.

# Citation

If you use 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.
2. G Yu*, TTY Lam, H Zhu, Y Guan*. 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.
3. G Yu, DK Smith, H Zhu, Y Guan, TTY Lam*. 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.

# Need helps?

If you have questions/issues, please visit ggtree homepage first. Your problems are mostly documented.

If you think you found a bug, please follow the guide and provide a reproducible example to be posted on github issue tracker. For questions, please post to google group. Users are highly recommended to subscribe to the mailing list.