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Figure 5 | BMC Bioinformatics

Figure 5

From: Increasing the efficiency of bacterial transcription simulations: When to exclude the genome without loss of accuracy

Figure 5

MATLAB graphical user interface. MATLAB graphical user interface. The on-rate at which excluding the genome yields less than a 5% difference between the genome and no-genome models is a complex function of the parameters: population doubling time, gene length, mRNA degradation half-life, and plasmid copy number. This space is sampled only at discrete points, but the MATLAB user interface (provided in the additional files accompanying this paper) allows the user to enter any value within the ranges sampled by our simulations (the allowable range is specified above each parameter's input window). A threshold on-rate (above which the genome and no-genome models differ by less than 5%) is calculated by a minimum-distance interpolation between the nearest available points (see text for more detail).

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