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In the absence of any matching models, structures were predicted using Rosetta fragment insertion method.
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The two alignments are parsed and a GFF output of the models' structures is created.
The model structures were assumed to have failed when either of the two limit states occurred.
Our model structures were purposefully kept simple so to focus on broad immunobiological insights.
Selected regions were extracted and gene model structures were predicted using GeneWise (v2.2.0).
The chosen model structures were based on likelihood ratio tests (Enger et al. 2012).
The resulting model structures were then linked to 1Y1U by Insight II.
Through an extensive process of testing and evaluation (see below), several model structures were investigated.
To examine this behavior, multiple model structures were characterized to see which model structure best explained the experimental data.
Therefore, the differences in the prediction errors obtained with the complex and the true model structures were very small.
Various LME model structures were constructed with R package nlme both with and without fixed effect factor interactions.
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