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Retracing the Early Evolution of Metazoa using Novel Methods and Strategies

Title
Retracing the Early Evolution of Metazoa using Novel Methods and Strategies
Funding
ARC | Discovery Projects
Contract (GA) number
DP0453173
Start Date
2004/01/01
End Date
2006/12/31
Open Access mandate
no
Organizations
-
More information
http://purl.org/au-research/grants/arc/DP0453173

 

  • Statistical tests to identify appropriate types of nucleotide sequence recoding in molecular phylogenetics

    Vera-Ruiz, Victor A; Lau, Kwok W; Robinson, John; Jermiin, Lars S (2014)
    Projects: ARC | Retracing the Early Evolution of Metazoa using Novel Methods and Strategies (DP0453173)
    Background Under a Markov model of evolution, recoding, or lumping, of the four nucleotides into fewer groups may permit analysis under simpler conditions but may unfortunately yield misleading results unless the evolutionary process of the recoded groups remains Markovian. If a Markov process is lumpable, then the evolutionary process of the recoded groups is Markovian. Results We consider stationary, reversible, and homogeneous Markov processes on two taxa and compare three tests for lumpab...

    Estimation of Phylogeny Using a General Markov Model

    John Robinson; Lars S. Jermiin; Vivek Jayaswal (2005)
    Projects: ARC | Retracing the Early Evolution of Metazoa using Novel Methods and Strategies (DP0453173)
    The non-homogeneous model of nucleotide substitution proposed by Barry and Hartigan (Stat Sci, 2: 191?210) is the most general model of DNA evolution assuming an independent and identical process at each site. We present a computational solution for this model, and use it to analyse two data sets, each violating one or more of the assumptions of stationarity, homogeneity, and reversibility. The log likelihood values returned by programs based on the F84 model (J Mol Evol, 29: 170?179), the ge...
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