TOPALi: Software for automatic identification of recombinant sequences within DNA multiple alignments

Bioinformatics

Volumn 20, Issue 11, 2004, Pages 1806-1807

  Milne, Iain ^a   Wright, Frank ^a   Rowe, Glenn ^b   Marshall, David F ^a   Husmeier, Dirk ^c   McGuire, Gràinne ^c  

^a SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

^b UNIVERSITY OF DUNDEE   (United Kingdom)

^c BIOMATHEMATICS AND STATISTICS SCOTLAND   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

RECOMBINANT DNA;

ARTICLE; AUTOMATION; BAYES THEOREM; COMPUTER PROGRAM; DNA SEQUENCE; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; STATISTICAL ANALYSIS;

OTHER SEQUENCES;

EID: 4444299144     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/bth155     Document Type: Article

References (6)

1. Drummond,A. and Strimmer,K. (2001) PAL: an object-oriented programming library for molecular evolution and phylogenetics. Bioinformatics, 17, 662-663.
2. Felsenstein,J. (2002) PHYLIP: Phylogeny Inference Package, Ver 3.6. University of Washington, Seattle, WA.
3. Husmeier,D. and McGuire,G. (2003) Detecting recombination in 4-Taxa DNA sequence alignments with Bayesian hidden Markov models and Markov chain Monte Carlo. Mol. Biol. Evol., 20, 315-337.
4. Husmeier,D. and Wright,F. (2001) Probabilistic divergence measures for detecting interspecies recombination. Bioinformatics, 17 (Suppl. 1), S123-S131.
5. Larget,B. and Simon,D. (1999) Markov chain Monte Carlo algorithms for the Bayesian analysis of phylogenetic trees. Mol. Biol. Evol., 16, 750-759.
6. McGuire,G. and Wright,F. (2000) TOPAL 2.0: improved detection of mosaic sequences within multiple alignments. Bioinformatics, 16, 130-134.