Table 7 Tree viewers and phylogenies

ARB [123]

A graphically oriented package comprising various tools for sequence database handling and data analysis

http://www.arb-home.de/

Bio.Phylo [286]

A unified toolkit for processing, analyzing and visualizing phylogenetic trees in Biopython

http://biopython.org

Dendroscope [125]

Software for visualizing phylogenetic trees and rooted networks

http://ab.inf.uni-tuebingen.de/software/dendroscope/

ETE Toolkit [287]

Python programming toolkit that assists in the automated manipulation, analysis and visualization of phylogenetic and other types of trees

http://etetoolkit.org/

EvolView [288]

Tool for displaying, managing and customizing phylogenetic trees

http://www.evolgenius.info/evolview.html

iTOL [126]

Online tool for the display and manipulation of phylogenetic trees

http://itol.embl.de/

MEGA [122]

Integrated tool for phylogenetic analysis and visualization

http://www.megasoftware.net/

NJplot [124]

A tree drawing program able to draw any phylogenetic tree expressed in the Newick phylogenetic tree format

http://doua.prabi.fr/software/njplot

OneZoom [289]

Committed to heightening awareness about the diversity of life on earth and its evolutionary history

http://www.onezoom.org/

Paloverde [290]

3D visualization of phylogenetic structure of moderately large trees on the scale of 100–2500 leaf nodes

http://loco.biosci.arizona.edu/paloverde/paloverde.html

PhyloDraw [291]

Drawing tool for creating phylogenetic trees

http://jade.cs.pusan.ac.kr/phylodraw/

PhyloExplorer [292]

Tool to facilitate assessment and management of phylogenetic tree collections

http://www.ncbi.orthomam.univ-montp2.fr/phyloexplorer/

PhyloWidget [293]

Program for viewing, editing and publishing phylogenetic trees online

http://www.phylowidget.org/

TreeDyn [294]

TreeDyn links unique leaf labels to lists of variables/values pairs of annotations, independently of the tree topologies

http://www.treedyn.org/

TreeGraph [295]

A graphical editor for phylogenetic trees that allows many graphical formats for the elements of the tree

http://treegraph.bioinfweb.info/

TreeQ-Vista [296]

Designed for presenting functional annotations in a phylogenetic context

http://genome.lbl.gov/vista/TreeQVista/

TreeVector [297]

Web utility to create and integrate phylogenetic trees as Scalable Vector Graphics (SVG) files

http://supfam.cs.bris.ac.uk/TreeVector/

TreeVolution [298]

Java tool to support visual analysis of phylogenetic trees

http://vis.usal.es/treevolution

T-REX [299]

Web server dedicated to the reconstruction of phylogenetic trees and reticulation networks and to the inference of horizontal gene transfer events

http://www.trex.uqam.ca/

ViPhy [300]

Comparison of multiple phylogenetic trees

http://www.gris.tu-darmstadt.de/research/vissearch/projects/ViPhy/