Visualization of multiple alignments, phylogenies and gene family evolution

JB Procter, J Thompson, I Letunic, C Creevey… - Nature …, 2010 - nature.com
Software for visualizing sequence alignments and trees are essential tools for life scientists.
In this review, we describe the major features and capabilities of a selection of stand-alone …

[PDF][PDF] GVis: A Scalable Visualization Framework for Genomic Data.

J Hong, DH Jeong, CD Shaw, W Ribarsky… - EuroVis, 2005 - sfu.ca
This paper describes a framework we have developed for the visual analysis of large-scale
phylogeny hierarchies populated with the genomic data of various organisms. This …

Phylo-VISTA: interactive visualization of multiple DNA sequence alignments

N Shah, O Couronne, LA Pennacchio, M Brudno… - …, 2004 - academic.oup.com
Motivation: The power of multi-sequence comparison for biological discovery is well
established. The need for new capabilities to visualize and compare cross-species …

ggtreeExtra: compact visualization of richly annotated phylogenetic data

S Xu, Z Dai, P Guo, X Fu, S Liu, L Zhou… - Molecular biology …, 2021 - academic.oup.com
We present the ggtreeExtra package for visualizing heterogeneous data with a phylogenetic
tree in a circular or rectangular layout (https://www. bioconductor. org/packages/ggtreeExtra) …

Wasabi: an integrated platform for evolutionary sequence analysis and data visualization

A Veidenberg, A Medlar… - Molecular biology and …, 2016 - academic.oup.com
Wasabi is an open source, web-based environment for evolutionary sequence analysis.
Wasabi visualizes sequence data together with a phylogenetic tree within a modern, user …

EvolView, an online tool for visualizing, annotating and managing phylogenetic trees

H Zhang, S Gao, MJ Lercher, S Hu… - Nucleic acids …, 2012 - academic.oup.com
EvolView is a web application for visualizing, annotating and managing phylogenetic trees.
First, EvolView is a phylogenetic tree viewer and customization tool; it visualizes trees in …

Evolview v2: an online visualization and management tool for customized and annotated phylogenetic trees

Z He, H Zhang, S Gao, MJ Lercher… - Nucleic acids …, 2016 - academic.oup.com
Evolview is an online visualization and management tool for customized and annotated
phylogenetic trees. It allows users to visualize phylogenetic trees in various formats …

[HTML][HTML] GenePalette: a universal software tool for genome sequence visualization and analysis

M Rebeiz, JW Posakony - Developmental biology, 2004 - Elsevier
To make effective use of the growing host of complete genome sequences, biologists must
have easy-to-use software tools that allow them to visualize, analyze, and modify genome …

[HTML][HTML] Dendroscope: An interactive viewer for large phylogenetic trees

DH Huson, DC Richter, C Rausch, T Dezulian… - BMC …, 2007 - Springer
Background Research in evolution requires software for visualizing and editing phylogenetic
trees, for increasingly very large datasets, such as arise in expression analysis or …

TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction

JM Chang, P Di Tommaso, V Lefort… - Nucleic acids …, 2015 - academic.oup.com
We present an update to our Galaxy-based web server for processing and visualizing
deeply sequenced data. Its core tool set, deepTools, allows users to perform complete …