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Inputs into the model include a compiled tree list, number of replicates to run, number of years to forecast, and number of nearest neighbors to select in the imputation steps.
A massively parallel pyrosequencing run was performed on a GS FLX using Titanium chemicals (Roche) with a split picotiterplate allowing two replicates to run at the same time.
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For example, the AUX Viewer program has been replicated to run in the MATLAB environment using AUX MEX.
Twenty-five year projections with 25 replicates required 15 20 h to run depending upon bandwidth.
The microplate reader offers the advantage of being able to run replicates of the same sample at the same time, as well as the ability to run more samples at one time (96-well plate vs. a single cuvette with the spectrophotometer) which would be useful for routine forensic casework.
Clearly, it would take about one month to run 100 replicates for a single scenario involving the entire U.S. population.
In this companion paper, we describe the simulation framework and how to run simulations to replicate experiments or run new experiments within the framework.
These experiments, however, require many technical and biological replicates to account for run-to-run variability.
For each scenario, 100 replicates were run to analyze the statistical behavior of the stochastic process.
In the ML analysis, 1,000 bootstrap replicates were run to assess support for specific nodes.
Replicates were run to generate a cohort of simulated animals and this dataset was used with the two-step estimation procedure to re-estimate k.
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