Exact(3)
We discuss some model validation problems, and argue that consideration of the experimental design leading to the data is essential in guiding the design of the simulations of a given model.
Repeated simulations of a given system produced largely similar results.
cupSODA allows to run parallel deterministic simulations of a given mass-action based system of biochemical reactions, using the LSODA algorithm; cuTauLeaping represents a novel restructuring of the tau-leaping workflow that fits the GPU architecture and avoids any inefficiency drawback for coarse-grain massive parallel stochastic simulations.
Similar(57)
Relative rate tests rejected the null hypothesis in no more than 80% of replicate simulations for a given set or parameters for both ITS1-like and ITS2-like sequences, independently of the level of divergence of the outgroup used (see solid lines in Figure 2A, B, D and 2E).
We also note that the rescaling method proposed herein was informed by in-depth knowledge provided by the previous work of several authors and that in general it may not always be obvious which parameters must be simultaneously adjusted to maintain expected patterns of variation in simulations for a given complex model.
It also offers the potential to provide authentic simulation of a given clinical procedure across multiple levels of challenge.
The main focus of our work is on providing a solid and comprehensive framework that researchers can use to determine if a particular class of SOC models is well suited for the simulation of a given type of channel.
For a docking simulation of a given interaction, we define successful sampling as the cases where a near-native model is sampled, and successful ranking as the cases where a near-native model is ranked among the ten lowest-energy clusters.
In accordance with the ABC methodology, we repeat 100,000 times the simulation of a given scenario, each time with input parameters drawn from prior distributions (see Additional file 1: Supplemental Table S2).
The actual work in Meep is performed by run functions, which time-step the simulation for a given amount of time or until a given condition is satisfied.
In simulations, unbiasedness of a given breeding value prediction method can be assessed by comparing the estimated and the true genetic trends in the simulated population over time, or by estimating the regression coefficient of true on estimated breeding values at each genetic evaluation time.
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