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SeqVis: visualization of compositional heterogeneity in large alignments of nucleotides

Ho, Joshua; Adams, Cameron L; Lew, Jie; Matthews, Timothy; Ng, Chiu; Shahabi-Sirjani, Arash; Tan, Leng; Zhao, Yu; Easteal, Simon; Wilson, Susan; Jermiin, Lars Sommer


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...[Show more]

CollectionsANU Research Publications
Date published: 2006
Type: Journal article
Source: Bioinformatics
DOI: 10.1093/bioinformatics/btl283


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