Iroki: automatic customization for phylogenetic trees

Iroki

Comparing phage and their host phyla

Iroki

All phage genomes from Phage SEED with assembled virome contigs from the Chesapeake Bay and Mediterranean Sea. Iroki highlights phylogenetic trends after coloring branches according to viral family or sampling location in the case of virome contigs (marked with an asterisk in the legend), and coloring node labels according to host phylum of the phage.

About

Background Phylogenetic trees are an important analytical tool for examining species and community diversity, and the evolutionary history of species. In the case of microorganisms, decreasing sequencing costs have enabled researchers to generate ever-larger sequence datasets, which in turn have begun to fill gaps in the evolutionary history of microbial groups. However, phylogenetic analyses of large sequence datasets present challenges to extracting meaningful trends from complex trees. Scientific inferences made by visual inspection of phylogenetic trees can be simplified and enhanced by customizing various parts of the tree, including label color, branch color, and other features. Yet, manual customization is time-consuming and error prone, and programs designed to assist in batch tree customization often require programming experience.

To address these limitations, we developed Iroki, a program for fast, automatic customization of phylogenetic trees. Iroki allows the user to incorporate information on a broad range of metadata for each experimental unit represented in the tree.

Documentation

For in depth docs and examples, please see the Iroki wiki page or visit the main Github page.
Visit the Iroki webapp and use the tool here.

Reference Iroki

Moore RM, Harrison AO, McAllister SM , Marine RL, Chan CS, and Wommack KE. 2017. Iroki: automatic customization for phylogenetic trees. bioRxiv doi:10.1101/106138