Sentence examples for uses the ml method from inspiring English sources

The Codeml program uses the ML method to detect positive selection.

Nonetheless, it is feasible to use the ML method in order to compare the quality of alignments by measuring their likelihood values, and we use this below to compare different alignment strategies.

We found that the swine flu viruses are not clustered correctly by using the ML method with the J-C model (figure 4(a)) and the origin of A H1N1 virus is not clear by NJ method with Kimura model (figure 4(b)) since A H1N1 genomes are all very far away from other genomes.

In all cases phylogenetic trees were estimated using the ML method implemented by the PAUP* 4.0 package [73] and utilizing the best-fit model of nucleotide substitution as determined by MODELTEST [74], which in each case was the most general time-reversible GTR+Γ4+I model (full parameter values available from the authors on request).

Ancestral sequences were estimated using the ML method (MEGA).

In some cases, I reanalyzed published data sets using the ML method (see Materials and Methods).

The molecular clock for KN was tested using the ML method in MEGA.

Evolutionary history was inferred using the ML method, selecting topology with a superior log likelihood rate.

Pseudoreplicate trees were inferred using the ML method in RAxML under a GTRMIX model.

The phylogenetic trees were inferred using the ML method based on the Tamura Nei model (Tamura and Nei 1993).

In models of continuous response variables, the parameter estimates are obtained using the ML method (default in M plus).