IBM SPSS 20.0 software (SPSS Inc., Chicago, IL, USA) was adopted to perform the ANOVA for the extraction yields of different extraction methods and calculate IC50.
The aim is to assess the difference between the methods and calculate the performance among main indicators, considering the same decision variables and constraints.
We perform cross validation for only the optimal solution among the optimal solutions of all methods and calculate the cross-validated accuracy for comparison with results in the literature [26].
In Fig. 7, we examine the numerical periodicity with several methods and calculate the error between the starting point ((q_{1}(0),q_{2}(0))=(0.4,0)) and the numerical solution at time (2kpi) ((k=1, ldots,500)) by using the Matlab built-in function for the cubic spline interpolation.
We separate these pauses from active translation bursts using a velocity threshold (see 'Materials and methods'), and calculate the 'pause-free' velocity of the ribosome.
To see whether the four new gene methods perform differently, we also test each pair of the four methods and calculate the p-values based on two-tailed t-test from the output of the regression models.
