Sentence examples for using a gtr substitution from inspiring English sources
Maximum likelihood trees were constructed with Phyml v3.0 [ 60] using a GTR substitution model and visualized with Dendroscope [ 61].
The molecular clock analysis was performed using a GTR +I+G nucleotide substitution model, and a relaxed clock model to account for variation in substitution rates.
PhyML [ 19] was used for the generation of phylogenetic trees using a GTR model estimated gamma distribution and 4 substitution rate categories.
Phylogeny was inferred using a GTR + Γ4 + I model.
The input trees were calculated using PHYML 3.0 [69] with a GTR substitution model, proportion of invariable sites and among site rate parameters estimated from the data.
We used a GTR model of substitution with heterogeneity among sites and we allow for different rates among cytb, cox1, cox3 and the non-coding regions.
Each search used a GTR model of nucleotide substitution with the gamma model of rate heterogeneity initiated from a complete random starting tree.
A GTR substitution model and rate heterogeneity modeled with a Gamma distribution and a proportion of invariable sites was used, as suggested by jModeltest [ 43].
So this method was run using the GTR substitution model on a neighbor-joining phylogenetic tree by the Datamonkey web server.
NJ search and bootstrap analysis were carried out in PAUP using the GTR substitution model with 500 replicates.
A maximum likelihood consensus tree was calculated for the same dataset using MEGA v.5.05 [ 44], with 500 bootstraps and using the GTR substitution model.
