ggtree: tree visualization and annotation

In ggtree: an R package for visualization of tree and annotation data

knitr::opts_chunk$set(tidy = FALSE,
           message = FALSE)

CRANpkg <- function (pkg) {
    cran <- "https://CRAN.R-project.org/package"
    fmt <- "[%s](%s=%s)"
    sprintf(fmt, pkg, cran, pkg)
}

Biocpkg <- function (pkg) {
    sprintf("[%s](http://bioconductor.org/packages/%s)", pkg, pkg)
}

Vignette

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

Citation

If you use r Biocpkg('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.

ggtree documentation built on Nov. 15, 2020, 2:09 a.m.