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The statistical error can be reduced by time-averaging or by performing multiple independent simulation (e.g., with a parallelized program).
Through both robustness measures, therefore, the stochastic simulation response, estimated in terms of a mean and variance based on multiple independent simulation replicates, is transformed into a scalar GA fitness evaluation.
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The plotted results are the average over multiple independent simulations.
Pseudo-marginal methods instead integrate across the missing data using a Monte Carlo estimate for the likelihood, generated from multiple independent simulations from the model.
To achieve this, we consider multiple independent simulations of the villin headpiece domain to quantify the contributions of different interactions to the energy of the native and fully extended states.
Due to the requirement of carrying out multiple independent simulations, we are unable to evaluate ergodicity directly [21].
Multiple independent simulations were run at different lengths.
We then analyzed the resulting distribution of steady-state protein abundance obtained from multiple independent simulations under 6400 different parameter conditions (see Additional file 1: Figure S3 legend).
For all these methods, multiple independent trials of simulation are tested and the average results are reported in the paper.
Standard error was obtained based on averages of multiple (≥ 3 ) independent simulations.
This allows the independent simulation of photon packets on multiple GPUs, opening up the possibility of GPU-based cluster computing.
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