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Corrected a mistake in the text: input variable was in range 0–1.0, not 0–100 as the word "percent" implies.
Added explanation of the variables in the regression models.
Added the regression models produced for experiment 3.
Note about turning the fitted curves into a regression problem.
Added a note and example of bimodal prevalence curves that can be produced when infection occurs near the end of the vaccine immune period.
Notes about trying an alternate error calculation to produce a better fit for the prevalence curves.
Minor: shorten a repetitive section.
Minor: wording changes to consistently use shift, lengthen, flatten instead of variants (e.g. "compress").
Minor wording tweak to make clear that the light blue curve plots the "good fit" and not the "RMSE".
Showed how a genetic algorithm is used to fit curves for partial vaccination.
Updated the experiment 3 setup: not using the H5N1 source document for now, and more details on the Latin Hypercube Sampling added.
Flipped around two text sections so they are introduced and discussed in the same order.
Added notes about the goal of the concept currently being explored.
Filled in the values to be used for "Duration of disease in a population exposed to disease and never vaccinated" and "Duration of immunity in a population vaccinated and never exposed to disease".
Added a note about how "Duration of disease in a population exposed to disease and never vaccinated" was found for experiment 3.
Added a description of experiment 3.
Results from experiment 2, using a longer delay to immunity and a longer vaccine immune period.
Fixed some broken image links.
Notes about how the population and parameters are set up to create the vaccination-then-infection and infection-then-vaccination scenarios.
Added plots.
Entered the text for the partial vaccine immunity RFC.