Pop-workflow: Improve default binning for plotPK/plotDemography

[Yuri05]

In the attached example 4 populations with 500 individuals each were defined: reference adult population for [30 .. 70] years and 3 children populations for [0 .. 3], [3 .. 6], [6 .. 9] years.
All the age-dependency plots in PK/Demography show nothing for [0 ..3] and [0..6] populations and only very few bins for [6 ..9].

01_bin.zip

Expand to see the plots

The default binning algorithm should be improved so that every Range plot shows at least N bins per default.
(not sure what the good choice for N is. 10?)

[Yuri05]

@pchelle @abdullahhamadeh Same reason as in #318. I have also tried to set the bins manually as described in #318 - but did not manage to get any bins for child populations. Can you tell me hot to set the bins properly for the example attached if I want to have e.g. 10 bins in every range plot?

[pchelle]

Currently, binning manually 10 bins per population would give:
workflow$plotPKParameters$settings$xParametersBreaks[[StandardPath$Age]] <- unique(c(seq(0, 3, length.out=10), seq(3, 6, length.out=10), seq(6, 9, length.out=10), seq(30, 70, length.out=10)))

[pchelle]

I went back into the code to see if I could find a solution,
currently the binning happens here:

OSPSuite.ReportingEngine/R/utilities-calculate-pk-parameters.R

Line 263 in 87b1313

aggregatedData <- getDemographyAggregatedData(

but I could make it happen after the selection of the population: e.g.

OSPSuite.ReportingEngine/R/utilities-calculate-pk-parameters.R

Line 288 in 87b1313

comparisonData <- aggregatedData[aggregatedData$Population %in% populationName, ]

In which case, settings$xParametersBreaks can be renamed settings$bins for clarity.
And can become a 2-levels list (one level for the x parameter = StandardPath$Age, and one for the simulationSetName = "Kids 0-3 years") or an R6 object
Thoughts ?

[pchelle]

With the update of PR #387, the aggregation is now performed after the selection of the population.
Consequently, the default binning is performed by population and look much better (see example below).

[pchelle]

Moving forward, the setting of the bins will also be easier:
workflow$plotPKParameters$settings$bins <- 15 and
workflow$plotDemography$settings$bins <- 15

I also added from our discussion the setting for stairstep plot:
workflow$plotDemography$settings$stairstep <- TRUE to have stairstep plot (which is default)
workflow$plotDemography$settings$stairstep <- FALSE to link the aggregated values

[Yuri05]

really nice!