Paloverde: An OpenGL 3D phylogeny browser

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

Summary: Paloverde is a new program designed to help visualize the phylogenetic structure of moderately large trees - trees on the scale of 100-2500 leaf nodes. The program embeds the user in an interactive virtual 3D world in which a large tree presented in various layouts can be manipulated through a mouse interface. The program implements radial 2D layouts, and true 3D spiral, conical and hemispherical (i.e. truly 'tree'-like) layouts. Subclades can be defined in the input file (using standard node-based definitions) and displayed collapsed as new leaf nodes, or left intact but annotated with names around the periphery of the tree. A search tool lets the user zoom to any selected leaf node. Paloverde is an open source project written in ANSI C using the OpenGL library for 3D visualization.

Original languageEnglish (US)
Pages (from-to)1004-1006
Number of pages3
JournalBioinformatics
Volume22
Issue number8
DOIs
StatePublished - Apr 2006
Externally publishedYes

Fingerprint

OpenGL
Phylogeny
Visualization
Layout
Leaves
Vertex of a graph
3D Visualization
Phylogenetics
Open Source
Libraries
Names
Mouse

ASJC Scopus subject areas

  • Clinical Biochemistry
  • Computer Science Applications
  • Computational Theory and Mathematics

Cite this

Paloverde : An OpenGL 3D phylogeny browser. / Sanderson, Michael.

In: Bioinformatics, Vol. 22, No. 8, 04.2006, p. 1004-1006.

Research output: Contribution to journalArticle

@article{f5a45cf4c01d43d9ad5217731687f8a8,
title = "Paloverde: An OpenGL 3D phylogeny browser",
abstract = "Summary: Paloverde is a new program designed to help visualize the phylogenetic structure of moderately large trees - trees on the scale of 100-2500 leaf nodes. The program embeds the user in an interactive virtual 3D world in which a large tree presented in various layouts can be manipulated through a mouse interface. The program implements radial 2D layouts, and true 3D spiral, conical and hemispherical (i.e. truly 'tree'-like) layouts. Subclades can be defined in the input file (using standard node-based definitions) and displayed collapsed as new leaf nodes, or left intact but annotated with names around the periphery of the tree. A search tool lets the user zoom to any selected leaf node. Paloverde is an open source project written in ANSI C using the OpenGL library for 3D visualization.",
author = "Michael Sanderson",
year = "2006",
month = "4",
doi = "10.1093/bioinformatics/btl044",
language = "English (US)",
volume = "22",
pages = "1004--1006",
journal = "Bioinformatics",
issn = "1367-4803",
publisher = "Oxford University Press",
number = "8",

}

TY - JOUR

T1 - Paloverde

T2 - An OpenGL 3D phylogeny browser

AU - Sanderson, Michael

PY - 2006/4

Y1 - 2006/4

N2 - Summary: Paloverde is a new program designed to help visualize the phylogenetic structure of moderately large trees - trees on the scale of 100-2500 leaf nodes. The program embeds the user in an interactive virtual 3D world in which a large tree presented in various layouts can be manipulated through a mouse interface. The program implements radial 2D layouts, and true 3D spiral, conical and hemispherical (i.e. truly 'tree'-like) layouts. Subclades can be defined in the input file (using standard node-based definitions) and displayed collapsed as new leaf nodes, or left intact but annotated with names around the periphery of the tree. A search tool lets the user zoom to any selected leaf node. Paloverde is an open source project written in ANSI C using the OpenGL library for 3D visualization.

AB - Summary: Paloverde is a new program designed to help visualize the phylogenetic structure of moderately large trees - trees on the scale of 100-2500 leaf nodes. The program embeds the user in an interactive virtual 3D world in which a large tree presented in various layouts can be manipulated through a mouse interface. The program implements radial 2D layouts, and true 3D spiral, conical and hemispherical (i.e. truly 'tree'-like) layouts. Subclades can be defined in the input file (using standard node-based definitions) and displayed collapsed as new leaf nodes, or left intact but annotated with names around the periphery of the tree. A search tool lets the user zoom to any selected leaf node. Paloverde is an open source project written in ANSI C using the OpenGL library for 3D visualization.

UR - http://www.scopus.com/inward/record.url?scp=33645801601&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33645801601&partnerID=8YFLogxK

U2 - 10.1093/bioinformatics/btl044

DO - 10.1093/bioinformatics/btl044

M3 - Article

C2 - 16500938

AN - SCOPUS:33645801601

VL - 22

SP - 1004

EP - 1006

JO - Bioinformatics

JF - Bioinformatics

SN - 1367-4803

IS - 8

ER -