treeio: Base classes and functions for parsing and exporting phylogenetic tree

The treeio package defines classes and functions for parsing and exporting phylogenetic trees. treeio is released within the Bioconductor project and the source code is hosted on GitHub.

Authors

Guangchuang Yu and Tommy Tsan-Yuk Lam, School of Public Health, The University of Hong Kong.

Citation

treeio was splitted from ggtree package, please cite the following article when using treeio:

citation

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.

Installation

Install treeio is easy, follow the guide on the Bioconductor page:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
## biocLite("BiocUpgrade") ## you may need this
biocLite("treeio")

Overview

Supported tree format:

Supported software output:

Tree manipulation

Find out details and examples on Documentation.

Projects that depend on treeio

CRAN packages

Bioconductor packages

Feedback