In order to demonstrate the effectiveness of the proposed method, the inferred results are compared with the interaction network of the chosen 27 genes, drawn from BioGRID database [ 23].
Firstly, this method uses the inferred activities instead of the gene expression levels to construct the classifier, resulting in the loss of some important information for classification.
Under the linked method, however, the inferred pattern of selection and linkage between loci is close to being correct, with, for example, locus 9 under strong negative selection and locus 15 close to neutral.
As we do not know the underlying species topology, a more complicated evaluation method is used: the inferred tree from each method is compared to the tree reconstructed from the true gene trees with the same method.
In order to evaluate various MOO methods we compared the inferred gene-regulatory matrix w with the true network topologies.
aLRT methods directly test the inferred topology by comparing it to an alternative topology where each node has been systematically collapsed.
The robustness of our method means that the inferred model performs well in the presence of noisy data and further, is able to detect and remove outlying data sets.
To show another practical application of the RidgeRace method, we mapped the inferred rates β to their associated branches using an arbitrary random tree from the simulation.
However, the use of such methods strongly depends on the inferred reference species tree and the sequence alignment quality (Roettger et al. 2009).
The contingent method revealed that mean willingness to pay ranges from 31to4343 €/year/respondent, whereas the inferred method pointed to a slightly higher range of willingness to pay, from 37€ to 44 €/year/respondent.
