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We generated synthetic alignments by forward simulation of the evolutionary process with the simgenome program [36] followed by re-alignment with PECAN [44].
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Thus, treatments are selected by forward simulation with a clinically specified desired risk of light hypoglycaemia (5% BG < 4.4 mmol/L) due to these possible future variations.
The present method was validated using finite element method (FEM) by forward simulation.
We have conducted a quantitative comparison between them by combining a forward simulation of crustal deformation, as a result of plate subduction, and a geodetic data inversion.
These schemes weight parameters according to the closeness of a forward simulation of a model (such as those produced by STI-GMaS) to true data, allowing for good parameter estimation even in the presence of extremely complicated disease dynamics.
Our simulation data was generated by a Python script which we developed using Python 2.6 and based on simuPOP (version 1.0.3) [ 24] which is an open source framework for forward simulation of population genetics.
We assessed the effectiveness of our SVM-based approach to detect selective constraint by performing forward simulations of functional 10 kb windows containing constrained elements of various sizes, and experiencing varying strengths of negative selection, as well as nonfunctional 10 kb windows evolving entirely under drift.
In all forward simulations of the disease dynamic (except where noted) we assume the "true" underlying parameter values to be those estimated by Murray [9], with the exception of the negative binomial overdispersion parameter k.
We performed forward simulations of RHH with SFS_CODE (Hernandez 2008).
Forward simulations of DNA sequences can require large amounts of RAM and many computations.
The results we show are recorded during such forward simulations of optimal life history strategies.
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