Hello,
We have been running stochastic simulations using COPASI-BasiCO. So far, we have been quantifying noise as the fano factor; that is, the variance divided by the mean. We have been doing this at equidistant sampling times; for example, for a simulation of 2,500 s, we compute the mean, standard deviation, and thus the fano factor, every 10 s.
At steady state, we have seen some unexpected fluctuations in the fano factor, which become less prominent when we increase the number of trajectories. Nevertheless, they are always there. We would like to ask the community if you could share your experience about the best way to calculate the statistics of stochastic simulations to avoid such things.
Any comment would be highly appreciated.
Best,
Sebastián