Ceiba: Scalable visualization of phylogenies and 2D/3D image collections

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Summary: Phylogenetic trees with hundreds of thousands of leaves are now being inferred from sequence data, posing significant challenges for visualization and exploratory analysis. Image data supplying valuable context for species in trees (and cues for exploring them) are becoming increasingly available in biodiversity databases and elsewhere but have rarely been built into tree visualization software in a scalable way. Ceiba lets the user explore large trees and inspect image collection arrays (sets of 'homologous' images) comprising mixtures of 2D and 3D image objects. Ceiba exploits recent improvements in graphics hardware, OpenGL toolkits and many standard high-performance computer graphics strategies, such as texture compression, level of detail control, culling, animations and image caching. Its tree layouts can be tuned by user-provided phylogenetic definitions of subtrees. The code has been extensively tested on phylogenies of up to 55 000 leaves and images.

Original languageEnglish (US)
Pages (from-to)2506-2507
Number of pages2
JournalBioinformatics
Volume30
Issue number17
DOIs
StatePublished - Sep 1 2014

Fingerprint

Ceiba
Phylogeny
3D Image
Visualization
Biodiversity
Computer graphics
Animation
Textures
Computer Graphics
Hardware
Leaves
Software Visualization
Exploratory Analysis
OpenGL
Graphics Hardware
Phylogenetic Tree
Cues
Caching
Phylogenetics
Software

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Computational Theory and Mathematics
  • Computer Science Applications
  • Computational Mathematics
  • Statistics and Probability
  • Medicine(all)

Cite this

Ceiba : Scalable visualization of phylogenies and 2D/3D image collections. / Sanderson, Michael.

In: Bioinformatics, Vol. 30, No. 17, 01.09.2014, p. 2506-2507.

Research output: Contribution to journalArticle

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