Handling density dependence

setBevertonHolt()

Set Beverton-Holt density dependence

Interactively tuning a multispecies model

tuneParams()

Launch shiny gadget for tuning parameters

markBackground()

Designate species as background species

retuneBackground()

Retunes abundance of background species.

rescaleSystem()

Rescale System

rescaleAbundance()

Rescale Abundance

updateInitialValues()

Update the initial values

pruneSpecies()

Removes species with abundance below a threshold

New plotting functions

getYieldVsF()

Calculate a yield-vs-F curve

plotYieldVsF()

Plot a yield-vs-F curve

displayFrames()

Display frames

getBiomassFrame()

Get data frame of biomass of species through time, ready for ggplot2

getSSBFrame()

Get data frame of spawning stock biomass of species through time, ready for ggplot2

Others

validSim()

Returns a valid simulation by removing non-finite results