Sentence examples for by maximum likelihood analyses from inspiring English sources

Positive selection was detected using PAML (Phylogenetic Analysis by Maximum Likelihood) analyses (Yang 2007).

Phylogenetic trees constructed based concatenated alignment of single-copy proteins by maximum likelihood analyses (a) and Neighbor-join method (b), indicating similar topology.

Using a molecular-based reference tree, the phylogenetic distribution of clusters within the genus was reconstructed, and the temporal association between rDNA clusters, breakpoints and centromeres was tested by maximum likelihood analyses.

The STE11 gene in F. depauperata does not appear to be mating type specific by either Parsimony or Maximum Likelihood analyses (Figure 10).

Then, phylogenetic relationships of haplotypes were further confirmed by maximum parsimony and maximum likelihood analyses in PAUP* 4.0b10 [ 44] and Bayesian analyses [ 45].

This is to be expected since compensatory mutations violate the assumption of character independence made by parsimony and most maximum likelihood analyses.

Because model choice as performed by ProtTest can lead to underestimating uncertainty, the maximum likelihood analyses were complemented by a Bayesian analysis that integrates over different models of evolution: rather than selecting an a priori empirical model of substitution, a reversible-jump Markov chain Monte Carlo (RJ-MCMC) was constructed to integrate over model uncertainty [57].

The same topology was obtained when data were analyzed by parsimony, neighbor-joining, and maximum likelihood analyses.

All the sequence datasets we generated were obtained by concatenating gene data sets; maximum likelihood analyses of these datasets then proceeded without using the "partitioned analysis" option.

Furthermore, the Norwegian pollock sequences were most similar to mitochondrial genotypes present in walleye pollock specimens from the Sea of Japan, an observation supported both by neighbor-joining, maximum parsimony, and maximum likelihood analyses.

The Bayesian consensus tree was compared to trees generated by neighbor-joining, maximum parsimony, and maximum likelihood analyses using PAUP, version 4.0b10 (14 ), and each method generated trees with the same overall topology.