SeqVis: visualization of compositional heterogeneity in large alignments of nucleotides

dc.contributor.authorHo, Joshua
dc.contributor.authorAdams, Cameron L
dc.contributor.authorLew, Jie
dc.contributor.authorMatthews, Timothy
dc.contributor.authorNg, Chiu
dc.contributor.authorShahabi-Sirjani, Arash
dc.contributor.authorTan, Leng
dc.contributor.authorZhao, Yu
dc.contributor.authorEasteal, Simon
dc.contributor.authorWilson, Susan
dc.contributor.authorJermiin, Lars Sommer
dc.date.accessioned2015-12-13T22:36:26Z
dc.date.issued2006
dc.date.updated2015-12-11T09:31:50Z
dc.description.abstractSummary: 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.
dc.identifier.issn1367-4803
dc.identifier.urihttp://hdl.handle.net/1885/76761
dc.publisherOxford University Press
dc.sourceBioinformatics
dc.subjectKeywords: nucleotide derivative; article; cluster analysis; computer analysis; computer program; genetic heterogeneity; information processing; nonhuman; nucleotide sequence; phylogeny; priority journal; sequence alignment
dc.titleSeqVis: visualization of compositional heterogeneity in large alignments of nucleotides
dc.typeJournal article
local.bibliographicCitation.issue17
local.bibliographicCitation.lastpage3
local.bibliographicCitation.startpage2162
local.contributor.affiliationHo, Joshua, University of Sydney
local.contributor.affiliationAdams, Cameron L, University of Sydney
local.contributor.affiliationLew, Jie, University of Sydney
local.contributor.affiliationMatthews, Timothy, University of Sydney
local.contributor.affiliationNg, Chiu, University of Sydney
local.contributor.affiliationShahabi-Sirjani, Arash, University of Sydney
local.contributor.affiliationTan, Leng, University of Sydney
local.contributor.affiliationZhao, Yu, University of Sydney
local.contributor.affiliationEasteal, Simon, College of Medicine, Biology and Environment, ANU
local.contributor.affiliationWilson, Susan, College of Physical and Mathematical Sciences, ANU
local.contributor.affiliationJermiin, Lars Sommer, University of Sydney
local.contributor.authoremailu8200596@anu.edu.au
local.contributor.authoruidEasteal, Simon, u8200596
local.contributor.authoruidWilson, Susan, u7401449
local.description.embargo2037-12-31
local.description.notesImported from ARIES
local.description.refereedYes
local.identifier.absfor080309 - Software Engineering
local.identifier.ariespublicationMigratedxPub5563
local.identifier.citationvolume22
local.identifier.doi10.1093/bioinformatics/btl283
local.identifier.scopusID2-s2.0-33748650992
local.identifier.uidSubmittedByMigrated
local.type.statusPublished Version

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