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The models denoted by +I imply that a fraction of data set is assumed to be invariable, where +G is considered to categorize the change of substitution rates among sites in discrete gamma distribution.
The best nucleotide substitution model selected by Modeltest 3.8 for the Seg-3 coding region sequence data set, was the General Time Reversible with gamma distributed rates across sites and a fraction of sites assumed to be invariable (GTR + I + Γ) [52].
Total sleeping time, working time, and resting time were assumed to be invariable at 8, 10, and 6 h, respectively.
The GTR model, with some sites assumed to be invariable and with variable sites assumed to follow a discrete gamma distribution (ref. [ 79]; GTR + I + Γ), was selected as the best-fit model of the nucleotide substitution for each partition on the basis of the Akaike Information Criteria (ref. [ 81]; AIC).
The general time-reversible model, with some sites assumed to be invariable and variable sites assumed to follow a discrete gamma distribution (GTR + I + Γ; [ 33]), was selected as the best-fit model of nucleotide substitution by MrModeltest 2.2 http://www.abc.se/~nylander/[ 34].
The parameters were as follows: assumed nucleotide frequencies are equal; substitution rate matrix with A-C substitutions = 1.0000, A-G = 2.7002, A-T = 0.7141, C-G = 0.7141, C-T = 3.8573, G-T = 1.0000; proportion of sites assumed to be invariable = 0 and rates for variable sites assumed to follow a gamma distribution with shape parameter = 0.3930.
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It was merely assumed to be invincible.
Missing data was assumed to be normal.
In Lemey et al. [ 12], migration rates were assumed to be constant throughout the year, but alternative variables, used as surrogates for measuring the effect of incidence seasonality were tested as predictors of these invariable rates.
We used hierarchical Bayesian information criterion (Schwarz 1978) test to select the best model of nucleotide substitution, which was a Tamura Nei (TN; Tamura and Nei 1993) model, allowing for rate heterogeneity across sites assuming a discrete Gamma distribution and for a proportion of sites to be invariable (TN + G + I).
"Writer's tend to be invariable pack rats," he said.
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