SeqVis: visualization of compositional heterogeneity in large alignments of nucleotides.
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.


BACKGROUND
http://www.bio.usyd.edu.au/jermiin/programs.htm.
Ho
Joshua W K
JW
School of Biological Sciences Sydney, Australia.
Adams
Cameron E
CE
Lew
Jie Bin
JB
Matthews
Timothy J
TJ
Ng
Chiu Chin
CC
Shahabi-Sirjani
Arash
A
Tan
Leng Hong
LH
Zhao
Yu
Y
Easteal
Simon
S
Wilson
Susan R
SR
Jermiin
Lars S
LS
D000465:Algorithms; D001483:Base Sequence; D003196:Computer Graphics; D017124:Conserved Sequence; D008969:Molecular Sequence Data; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012689:Sequence Homology, Nucleic Acid; D012984:Software; D014584:User-Computer Interface