Sentence examples for using the evolutionary model from inspiring English sources

The gag and env gp120 sequence data were analyzed using the evolutionary model selected by the Akaike information criterion in jModeltest 0.1.1 [36] and a relaxed molecular clock (uncorrelated lognormal) under the Yule model.

Initially, the original Kitchen et al. [20] data set (n = 77) was used to replicate their original findings using the evolutionary model specified in that report and another one (see below).

Evolutionary relationships were inferred by ML using the evolutionary model LG [ 41] + GAMMA + Invariants as implemented in RAxML [ 42].

Phylogenetic tree was generated by PhyML [ 68] using the evolutionary model WAG, the gamma-distribution model, four rate categories and invariant position.

Maximum likelihood (ML) phylogenetic analysis was performed as implemented in Phylogenetic Analysis Using Parsimony (PAUP), using the evolutionary model selected by jModeltest software.

I then computed the average ΔS for the substitutions we observed, and calculated the Z statistic using E[ΔS] and V[ΔS] computed exactly using the evolutionary model or using the long-time limit approximation.

Tests for heterogeneous selective pressures were carried out on the resolved phylogeny using the evolutionary models implemented in PAML 3.15 [ 39] and the complete MSA.

To predict the disulfide bond patterns we first modeled a representative of each group (those indicated in Figure  1) using the evolutionary protein model building web-server Phyre2 [ 74].

A symmetrical Mk1 model [ 55], which assumes equal forward and backward character transition rates (i.e., all changes equally probable), was used as the evolutionary model.

The resulting simulated sequences were used to create a maximum likelihood tree using the WAG evolutionary model.

Maximum likelihood (ML) trees of these data were then inferred by PAUP v.4.0b [35], using the TVM+Γ evolutionary model as determined by MODELTEST 3.7 [3.7.