parameterizeMGDrivE.RdGenerate parameters for simulation on a Network.
Parameters include: average generation time \(g\), population growth rate \(R_{m}\),
aquatic mortality \(\mu_{Aq}\), and aquatic survival \(\theta_{Aq}\), which
are shared between patches and calculated by calcAverageGenerationTime,
calcPopulationGrowthRate, and calcLarvalStageMortalityRate.
Patch-specific parameters \(\alpha\) and \(L_{eq}\)
are calculated for each patch by calcDensityDependentDeathRate
and calcLarvalPopEquilibrium.
parameterizeMGDrivE( runID = 1L, nPatch, simTime, sampTime = 1L, tEgg = 1L, tLarva = 14L, tPupa = 1L, beta = 32, muAd = 0.123, popGrowth = 1.096, AdPopEQ, LarPopRatio, AdPopRatio_F, AdPopRatio_M, inheritanceCube )
| runID | Begin counting runs with this set of parameters from this value |
|---|---|
| nPatch | Number of |
| simTime | Maximum time to run simulation |
| sampTime | Times to sample, used as tNow %% sampTime, default is every day |
| tEgg | Length of egg stage |
| tLarva | Length of larval instar stage |
| tPupa | Length of pupal stage |
| beta | Female egg batch size of wild-type |
| muAd | Wild-type daily adult mortality (1/muAd is average wild-type lifespan) |
| popGrowth | Daily population growth rate (used to calculate equilibrium) |
| AdPopEQ | Single number or vector of adult population size at equilibrium (single number implies all patches have the same population) |
| LarPopRatio | May be empty; if not, a vector gives the wildtype gene frequencies among larval stages at the beginning of simulation or a matrix provides different initial frequencies for each patch (every row is a different patch, must have nrow = nPatch) |
| AdPopRatio_F | May be empty; if not, a vector gives the wildtype gene frequencies among adult females at the beginning of simulation or a matrix provides different initial frequencies for each patch (every row is a different patch, must have nrow = nPatch) |
| AdPopRatio_M | May be empty; if not, a vector gives the wildtype gene frequencies among adult males at the beginning of simulation or a matrix provides different initial frequencies for each patch (every row is a different patch, must have nrow = nPatch) |
| inheritanceCube | Inheritance cube to check/set population ratios at the beginning of the simulation |
# using default parameters for 2 patches # using different population sizes for patches simPars <- parameterizeMGDrivE(nPatch = 2, simTime = 365, AdPopEQ = c(100,200), inheritanceCube = cubeMendelian())