Format

Send to

Choose Destination
PLoS One. 2010 Aug 18;5(8):e12267. doi: 10.1371/journal.pone.0012267.

jsPhyloSVG: a javascript library for visualizing interactive and vector-based phylogenetic trees on the web.

Author information

1
Department of Biological Sciences, San José State University, San José, California, United States of America. samsmits@gmail.com

Abstract

BACKGROUND:

Many software packages have been developed to address the need for generating phylogenetic trees intended for print. With an increased use of the web to disseminate scientific literature, there is a need for phylogenetic trees to be viewable across many types of devices and feature some of the interactive elements that are integral to the browsing experience. We propose a novel approach for publishing interactive phylogenetic trees.

METHODS/PRINCIPAL FINDINGS:

We present a javascript library, jsPhyloSVG, which facilitates constructing interactive phylogenetic trees from raw Newick or phyloXML formats directly within the browser in Scalable Vector Graphics (SVG) format. It is designed to work across all major browsers and renders an alternative format for those browsers that do not support SVG. The library provides tools for building rectangular and circular phylograms with integrated charting. Interactive features may be integrated and made to respond to events such as clicks on any element of the tree, including labels.

CONCLUSIONS/SIGNIFICANCE:

jsPhyloSVG is an open-source solution for rendering dynamic phylogenetic trees. It is capable of generating complex and interactive phylogenetic trees across all major browsers without the need for plugins. It is novel in supporting the ability to interpret the tree inference formats directly, exposing the underlying markup to data-mining services. The library source code, extensive documentation and live examples are freely accessible at www.jsphylosvg.com.

PMID:
20805892
PMCID:
PMC2923619
DOI:
10.1371/journal.pone.0012267
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Public Library of Science Icon for PubMed Central
Loading ...
Support Center