TY  - JOUR
UR  - https://doi.org/10.7717/peerj.8584
DO  - 10.7717/peerj.8584
TI  - Iroki: automatic customization and visualization of phylogenetic trees
AU  - Moore,Ryan M.
AU  - Harrison,Amelia O.
AU  - McAllister,Sean M.
AU  - Polson,Shawn W.
AU  - Wommack,K. Eric
A2  - Venancio,Thiago
DA  - 2020/02/26
PY  - 2020
KW  - Bioinformatics
KW  - Environmental microbiology
KW  - Phylogeny
KW  - Sequence analysis
KW  - Metagenomics
KW  - Microbiome
KW  - Viral ecology
KW  - Microbial ecology
KW  - Data visualization
KW  - Software
AB  - 
            Phylogenetic trees are an important analytical tool for evaluating community diversity and evolutionary history. In the case of microorganisms, the decreasing cost of sequencing has 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 these types of datasets create complex trees that can be challenging to interpret. Scientific inferences made by visual inspection of phylogenetic trees can be simplified and enhanced by customizing various parts of the tree. Yet, manual customization is time-consuming and error prone, and programs designed to assist in batch tree customization often require programming experience or complicated file formats for annotation. Iroki, a user-friendly web interface for tree visualization, addresses these issues by providing automatic customization of large trees based on metadata contained in tab-separated text files. Iroki’s utility for exploring biological and ecological trends in sequencing data was demonstrated through a variety of microbial ecology applications in which trees with hundreds to thousands of leaf nodes were customized according to extensive collections of metadata. The Iroki web application and documentation are available at https://www.iroki.net or through the VIROME portal http://virome.dbi.udel.edu. Iroki’s source code is released under the MIT license and is available at https://github.com/mooreryan/iroki.
         
VL  - 8
SP  - e8584
T2  - PeerJ
JO  - PeerJ
J2  - PeerJ
SN  - 2167-8359
ER  -