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According to the random utility model, the alternatives with the highest and lowest utility have the highest probability of being chosen as the best and worst alternatives, P(b)=Pleft {U}_b=underset{jin C}{ max}left{{U}_jright}right), (15) P w)=PBig {U}_w={ max}_{jin C}left{-{U}_jright}. and Pleft(b,wBig|Cright)=Pleft {U}_b>{U}_j>{U}_wright),forall jin {C}_{-left{b,wright}}, bne w (16).
Thus, instead of talking about the applicability of the TOL "metaphor", perhaps we should be talking about TOL quantitative model, the alternatives to it, and which model or mixed model is best compatible with the data.
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In our description of the model, the alternative scenarios based on CRM, ARM, and FAM are considered on equal footing.
But a single payer model, the alternative, is also incapable of optimizing quality and efficiency in the short term.
In the AHP model, the alternative selection problem is structured into a hierarchy, with the overall goal placed at the top, with lower-level selection criteria below.
First we conducted the 'branch' test [ 53, 54, 59, 60] where model 2 (the alternative model) is compared to model 0 (null model).
The first model is the null model without adaptive evolution and the second model is the alternative model with adaptive evolution, so a significant improvement in maximum likelihood supports positive selection.
M7 and M8a models are the null models without positive selection (no codon with Ka/Ks > 1) and the M8 model is the alternative model with positive selection.
The M7 and M8a models are the null models without positive selection (no codons with d N/d S > 1) and the M8 model is the alternative model with positive selection.
The significance of difference between the null model and the alternative model was evaluated by calculating twice the log-likelihood difference following a χ2 distribution, with the number of degrees of freedom.
We conducted an LRT between the null model and the alternative model for each gene.
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Justyna Jupowicz-Kozak
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