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Firstly, each of the 25 data series analysed is an independent realisation of the model.
As each of the time series generated for each condition is an independent stochastic realisation of the model, the inferred parameter distributions can be expected to include the generating parameters, but this cannot be guaranteed.
When one or two cycles of data are analysed, the value of log Z for the best-fitting model is within one standard deviation of the second best model (that is, we cannot distinguish between N=4 and N=5 for this particular realisation of the model).
Using the same image analysis procedure that was applied to the experimental images [ 7, 62], we detected the leading edge of the simulated experiment, and calculated the area enclosed by the leading edge to determine R. Figure 4 E F show two snapshots from a single realisation of the model with D = 243 μmhour−1, q = 0 and λ = 0hour−1 at t = 0 and t = 48 hours.
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This was done by running many realisations of the model for each parameter set θ, without use of any control methods other than the removal of clinical animals.
In all cases, the simulated cell density profiles for each parameter combination were averaged over five identically prepared realisations of the model.
For each different parameter combination, we simulated the experiments and averaged the results using three identically prepared realisations of the model.
The same priors were used for the inference of parameters of the DD model from all realisations of the model, and, similarly, a fixed prior was used for the LD model and in the analysis of alternative values for N.
The initial realisation of the Epitheliome model can be considered as a phenomenological representation of actual cell behaviour, as the rules governing state transitions are based purely on observations made experimentally, many of which were extracted from the scientific literature.
The suitably scaled local vectorial sum of MT segments for an individual realisation of the polymer model is a vector field v m which represents active Kinesin-driven transponthen the cytoskeleton ('Materials and methods' Motor velocity field).
The blue histograms show the critical force of 1000 realisations of the null model, in which the lengths and number of microtubules are sampled randomly.
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Justyna Jupowicz-Kozak
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