Sentence examples for model a gamma from inspiring English sources

We used the mixed model option to choose the amino acid substitution model, a gamma rate distribution parameter estimated from our dataset, and saving every 100th tree.

A maximum likelihood (ML) tree was constructed with PAUP*, version 4.0b10 [ 36], by using the general time-reversible model, a gamma distribution with four rate categories, and an estimate of the proportion of invariant sites.

Maximum-likelihood phylogenetic analysis was performed using PhyML V.3.0 (63) with the Le-Gascuel (LG) evolution model, a gamma law with four categories and an estimated gamma distribution parameter, a Nearest Neighbor Interchange starting tree, and approximate likelihood ratio test for branches based on a Shimodaira–Hasegawa-like procedure.

The maximum likelihood (ML) phylogeny of these 374 sequences was inferred with PhyML v.3.1 with the Le and Gascuel (LG) model, a gamma distribution with four categories (Γ4) and an estimated alpha parameter to take into account the heterogeneity of evolutionary rates among sites, and the NNI+SPR strategy of topology exploration.

PHYML trees were calculated using the Whelan and Goldman model, a gamma correction to take into account the heterogeneity of evolutionary rates across sites (four discrete classes of sites, an estimated alpha parameter, and an estimated proportion of invariable sites), and subtree pruning and regrafting topology searches.

A regressor was constructed by convolving a hemodynamic response model (a gamma-variate function; Cohen 1997, parameters b = 8.6, c = 0.547) with each trial onset in a task-reference function.

The Jones-Taylor-Thornton protein evolutionary model with a GAMMA model of heterogeneity and empirical amino acid frequencies was selected as the best-fitting substitution matrix based on ProtTest 3.3 (Darriba et al. 2011).

Bayesian trees with posterior probabilities were constructed with mixed amino acid models, a gamma distribution for rate variation among sites, and a proportion of invariable sites.

In addition, the distribution of site-specific relative rates of substitution are not anymore a Dirichlet, but as in more classical phylogenetic models, a gamma distribution of mean 1 and shape paremeter α [ 25].

The General Time Reversible (GTR) nucleotide substitution model with a gamma -distribution model of among-site rate variation and a proportion of invariable sites (i.e. the GTR + Γ + I substitution model) was utilized.

A phylogenetic tree was created using FastTree version 2.1.4 (Price et al. 2010) with a GTR model and a gamma parameter to model rate variation across sites.