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Various methods for partitioning genetic variation within and among sites were implemented.
Models that allow ω to vary across sites were implemented in order to test for sites that may be under positive selection [ 40- 42]; however, none of these tests were able to detect evidence of positive selection in our data set.
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The subsequent dehydration to THF can be promoted by applying higher temperatures; however, selectivities to tetrahydrofuran remain low over typical Cu/ZnO catalysts unless additional acid sites are implemented.
At a low content, PDMS forms the adsorption layer with a flat structure, in which a maximal interaction of macromolecules with the surface active sites is implemented, and the water molecules do not have access to interact with hydrophilic active centers of nanooxides.
The HKY substitution model with empirical bases and invariant sites was implemented.
Hopping of molecules between sites is implemented using either local or a global hopping rules in the following way.
In our use of the SCMF, a trial exchange between two amino acids at randomly chosen sites is implemented.
The rate variability among sites was implemented by sampling from a gamma distribution, which was shown to capture well the rate variability in gain and loss dynamics among gene families (Cohen et al. 2008; Hao and Golding 2008b).
This idea of evaluating the statistical significance of heterotypic clusters of sites was implemented in many programs including ClusterDraw [ 23], ModuleSearcher [ 24], MCAST [ 25], eCIS-ANALYST [ 26], Cister [ 27], Cluster-Buster [ 28] and TargetExplorer [ 29].
The models at the CAESAR site were implemented in java and are publicly accessible.
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