SeqVis: visualization of compositional heterogeneity in large alignments of nucleotides
Date
2006
Authors
Ho, Joshua
Adams, Cameron L
Lew, Jie
Matthews, Timothy
Ng, Chiu
Shahabi-Sirjani, Arash
Tan, Leng
Zhao, Yu
Easteal, Simon
Wilson, Susan
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Oxford University Press
Abstract
Summary: Most phylogenetic methods assume that the sequences evolved under homogeneous, stationary and reversible conditions. Compositional heterogeneity in data intended for studies of phylogeny suggests that the data did not evolve under these conditions. SeqVis, a Java application for analysis of nucleotide content, reads sequence alignments in several formats and plots the nucleotide content in a tetrahedron. Once plotted, outliers can be identified, thus allowing for decisions on the applicability of the data for phylogenetic analysis.
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Keywords
Keywords: nucleotide derivative; article; cluster analysis; computer analysis; computer program; genetic heterogeneity; information processing; nonhuman; nucleotide sequence; phylogeny; priority journal; sequence alignment
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Source
Bioinformatics
Type
Journal article
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Restricted until
2037-12-31
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