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An event model for phylogenetic biogeography using explicitly geographical ranges.
The nucleotide substitution model for phylogenetic reconstruction was determined by using the Akaike information criterion implemented in jModeltest 0.1.1 (19 ).
ProtTest was used to determine the most suitable model for phylogenetic reconstruction of Navs (Abascal et al., 2005).
Full alignments were trimmed using G-blocks [ 123] and were run through ProtTest using the default settings to determine the optimum evolutionary model for phylogenetic analyses [ 124].
The best evolution model for phylogenetic analyses was also tested, and phylogenetic trees of the entire sequence were constructed by Bayesian Inference using MrBayes v3.2.2 [ 60].
A thorough model comparison, like the one we've performed on non-coding sequences [ 35], is necessary to determine an accurate evolutionary model for phylogenetic inference.
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Lanfear, R., Calcott, B., Ho, S. Y. & Guindon, S. Partition Finder: combined selection of partitioning schemes and substitution models for phylogenetic analyses.
Lanfear, R., Calcott, B., Ho, S.Y. & Guindon, S. Partitionfinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses.
Lanfear, R., Calcott, B., Ho, S. Y. & Guindon, S. PartitionFinder: Combined selection of partitioning schemes and substitution models for phylogenetic analyses.
John used his programming abilities to study the accuracy of methods for selecting models for phylogenetic analysis.
This software spans through 56 different models for phylogenetic trees constructions.
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