The package convention is camelCase for method names. The following functions are camelCase but are not S3 generics (i.e. they do not dispatch via UseMethod). This is an inventory to help review whether any of these should be converted to S3 generics or otherwise renamed for consistency.
Constructor / factory
newCommunityParams, newMultispeciesParams, newSingleSpeciesParams, newTraitParamsemptyParams
Default rate implementations (mizer*)
mizerDiffusion, mizerEGrowth, mizerEncounter, mizerERepro, mizerEReproAndGrowthmizerFeedingLevel, mizerFMort, mizerFMortGear, mizerMortmizerPredMort, mizerPredRate, mizerRates, mizerRDI, mizerResourceMort
Getters (not generic)
getComponent, getESpawning, getM2, getM2Background, getPhiPreygetRateFunction, getResourceCapacity, getResourceDynamics, getResourceLevel, getResourceRate, getZfinalNOther, initialNOther
Setters (not generic)
setComponent, setRateFunction, setRmax
Plotters
plotDataFrame, plotM2plotlyBiomass, plotlyBiomassObservedVsModel, plotlyFeedingLevel, plotlyFMortplotlyGrowthCurves, plotlyPredMort, plotlySpectra, plotlyYield, plotlyYieldGear, plotlyYieldObservedVsModel
Validation
validColours, validEffortArray, validEffortVector, validGearParamsvalidGivenSpeciesParams, validLinetypes, validMizerParams, validSpeciesParams
Other
compareSpeciesParams, completeSpeciesParams, constantEggRDI, constantRDDcustomFunction, markBackground, noRDD, readParamsremoveBackgroundSpecies, removeComponent, summariseArrayDifftruncateSim, upgradeParams, upgradeSim
The package convention is camelCase for method names. The following functions are camelCase but are not S3 generics (i.e. they do not dispatch via
UseMethod). This is an inventory to help review whether any of these should be converted to S3 generics or otherwise renamed for consistency.Constructor / factory
newCommunityParams,newMultispeciesParams,newSingleSpeciesParams,newTraitParamsemptyParamsDefault rate implementations (
mizer*)mizerDiffusion,mizerEGrowth,mizerEncounter,mizerERepro,mizerEReproAndGrowthmizerFeedingLevel,mizerFMort,mizerFMortGear,mizerMortmizerPredMort,mizerPredRate,mizerRates,mizerRDI,mizerResourceMortGetters (not generic)
getComponent,getESpawning,getM2,getM2Background,getPhiPreygetRateFunction,getResourceCapacity,getResourceDynamics,getResourceLevel,getResourceRate,getZfinalNOther,initialNOtherSetters (not generic)
setComponent,setRateFunction,setRmaxPlotters
plotDataFrame,plotM2plotlyBiomass,plotlyBiomassObservedVsModel,plotlyFeedingLevel,plotlyFMortplotlyGrowthCurves,plotlyPredMort,plotlySpectra,plotlyYield,plotlyYieldGear,plotlyYieldObservedVsModelValidation
validColours,validEffortArray,validEffortVector,validGearParamsvalidGivenSpeciesParams,validLinetypes,validMizerParams,validSpeciesParamsOther
compareSpeciesParams,completeSpeciesParams,constantEggRDI,constantRDDcustomFunction,markBackground,noRDD,readParamsremoveBackgroundSpecies,removeComponent,summariseArrayDifftruncateSim,upgradeParams,upgradeSim