Mediterranean Forest Simulation


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Documentation for package ‘medfate’ version 0.7.4

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B D E F G H L M P R S T V misc

-- B --

biophysics.leafTemperature Physical and biophysical utility functions
biophysics.radiationDiurnalPattern Physical and biophysical utility functions
biophysics.temperatureDiurnalPattern Physical and biophysical utility functions

-- D --

defaultControl Default control parameters for models
defaultSoilParams Default soil parameters

-- E --

emptyforest Forest description
exampleforest Example forest stand
examplemeteo Example daily meteorology data
exampleSGL Example of spatial grid with forest data
exampleSPL Example of spatial points with forest data
extractSFIforest Extract forest from SFI data

-- F --

fire.FCCS Fire behaviour functions
fire.Rothermel Fire behaviour functions
forest Forest description
forest.BasalArea Forest description functions
forest2aboveground Input for simulation models
forest2belowground Input for simulation models
forest2growthInput Input for simulation models
forest2spwbInput Input for simulation models
fuel.cohortFineFMC Fuel stratification and fuel characteristics
fuel.FCCS Fuel stratification and fuel characteristics
fuel.Stratification Fuel stratification and fuel characteristics
fuel.WindAdjustmentFactor Fuel stratification and fuel characteristics

-- G --

growth Forest growth
growthInput Input for simulation models
growthpoints Model simulations for spatially-distributed forest stands

-- H --

head-method Class '"SpatialPointsLandscape"'
hydraulics.averagePsi Hydraulic confuctance functions
hydraulics.averageRhizosphereResistancePercent Scaling from conductivity to conductance
hydraulics.E2psiAboveground Hydraulic supply functions
hydraulics.E2psiAbovegroundCapacitance Hydraulic supply functions
hydraulics.E2psiAbovegroundCapacitanceDisconnected Hydraulic supply functions
hydraulics.E2psiBelowground Hydraulic supply functions
hydraulics.E2psiNetwork Hydraulic supply functions
hydraulics.E2psiNetworkCapacitance Hydraulic supply functions
hydraulics.E2psiTwoElements Hydraulic supply functions
hydraulics.E2psiVanGenuchten Hydraulic supply functions
hydraulics.E2psiXylem Hydraulic supply functions
hydraulics.ECapacitance Hydraulic supply functions
hydraulics.ECrit Hydraulic supply functions
hydraulics.EVanGenuchten Hydraulic supply functions
hydraulics.EXylem Hydraulic supply functions
hydraulics.findRhizosphereMaximumConductance Scaling from conductivity to conductance
hydraulics.K2Psi Hydraulic confuctance functions
hydraulics.leafWaterCapacity Scaling from conductivity to conductance
hydraulics.maximumRootHydraulicConductance Scaling from conductivity to conductance
hydraulics.maximumSoilPlantConductance Scaling from conductivity to conductance
hydraulics.maximumStemHydraulicConductance Scaling from conductivity to conductance
hydraulics.psi2K Hydraulic confuctance functions
hydraulics.psi2Weibull Hydraulic confuctance functions
hydraulics.psiCrit Hydraulic confuctance functions
hydraulics.referenceConductivityHeightFactor Scaling from conductivity to conductance
hydraulics.regulatedPsiTwoElements Hydraulic supply functions
hydraulics.regulatedPsiXylem Hydraulic supply functions
hydraulics.soilPlantResistances Scaling from conductivity to conductance
hydraulics.stemWaterCapacity Scaling from conductivity to conductance
hydraulics.supplyFunctionAboveground Hydraulic supply functions
hydraulics.supplyFunctionAbovegroundCapacitance Hydraulic supply functions
hydraulics.supplyFunctionBelowground Hydraulic supply functions
hydraulics.supplyFunctionNetwork Hydraulic supply functions
hydraulics.supplyFunctionNetworkCapacitance Hydraulic supply functions
hydraulics.supplyFunctionOneXylem Hydraulic supply functions
hydraulics.supplyFunctionPlot Hydraulic supply functions
hydraulics.supplyFunctionThreeElements Hydraulic supply functions
hydraulics.supplyFunctionTwoElements Hydraulic supply functions
hydraulics.taperFactorSavage Scaling from conductivity to conductance
hydraulics.terminalConduitRadius Scaling from conductivity to conductance
hydraulics.vanGenuchtenConductance Hydraulic confuctance functions
hydraulics.vulnerabilityCurvePlot Hydraulic confuctance functions
hydraulics.xylemConductance Hydraulic confuctance functions
hydraulics.xylemPsi Hydraulic confuctance functions
hydrology.infiltrationRepartition Soil infiltration and bare soil evaporation
hydrology.rainInterception Rainfall interception
hydrology.soilEvaporation Soil infiltration and bare soil evaporation
hydrology.soilInfiltration Soil infiltration and bare soil evaporation

-- L --

light.cohortSunlitShadeAbsorbedRadiation Light extinction and absortion functions
light.instantaneousLightExtinctionAbsortion Light extinction and absortion functions
light.layerIrradianceFraction Light extinction and absortion functions
light.layerIrradianceFractionBottomUp Light extinction and absortion functions
light.layerSunlitFraction Light extinction and absortion functions

-- M --

moisture.apoplasticPsi Tissue moisture functions
moisture.apoplasticRWC Tissue moisture functions
moisture.pressureVolumeCurvePlot Tissue moisture functions
moisture.symplasticPsi Tissue moisture functions
moisture.symplasticRWC Tissue moisture functions
moisture.tissueFMC Tissue moisture functions
moisture.tissueRWC Tissue moisture functions

-- P --

photo.electronLimitedPhotosynthesis Photosynthesis submodel functions
photo.GammaTemp Photosynthesis submodel functions
photo.JmaxTemp Photosynthesis submodel functions
photo.KmTemp Photosynthesis submodel functions
photo.leafPhotosynthesisFunction Photosynthesis submodel functions
photo.multilayerPhotosynthesisFunction Photosynthesis submodel functions
photo.photosynthesis Photosynthesis submodel functions
photo.rubiscoLimitedPhotosynthesis Photosynthesis submodel functions
photo.sunshadePhotosynthesisFunction Photosynthesis submodel functions
photo.VmaxTemp Photosynthesis submodel functions
plant.BasalArea Plant description functions
plant.CharacterParameter Plant description functions
plant.Cover Plant description functions
plant.CrownBaseHeight Plant description functions
plant.CrownLength Plant description functions
plant.CrownRatio Plant description functions
plant.Density Plant description functions
plant.EquilibriumLeafLitter Plant description functions
plant.EquilibriumSmallBranchLitter Plant description functions
plant.FoliarBiomass Plant description functions
plant.Fuel Plant description functions
plant.Height Plant description functions
plant.ID Plant description functions
plant.LAI Plant description functions
plant.LargerTreeBasalArea Plant description functions
plant.Parameter Plant description functions
plant.Phytovolume Plant description functions
plant.Species Plant description functions
plant.SpeciesName Plant description functions
plot.growth Displays simulation results
plot.spwb Displays simulation results
plot.spwb.day Displays simulation results for one day
plot.spwbgrid Soil-plant water balance and lateral water discharge
print-method Class '"SpatialPointsLandscape"'
print.soil Soil initialization
print.summary.forest Forest description

-- R --

root.conicDistribution Distribution of fine roots
root.ldrDistribution Distribution of fine roots
root.rootLengths Distribution of fine roots
root.xylemConductanceProportions Distribution of fine roots

-- S --

SFI2SGL Create Landscape Classes from SFI
SFI2SPL Create Landscape Classes from SFI
SFM_metric Standard fuel models (Albini 1976, Scott & Burgan 2005)
show-method Class '"SpatialPointsLandscape"'
soil Soil initialization
soil.psi Soil texture and hydraulics
soil.psi2thetaSX Soil texture and hydraulics
soil.psi2thetaVG Soil texture and hydraulics
soil.temperaturechange Soil thermodynamic functions
soil.temperaturegradient Soil thermodynamic functions
soil.thermalcapacity Soil thermodynamic functions
soil.thermalconductivity Soil thermodynamic functions
soil.theta Soil texture and hydraulics
soil.theta2psiSX Soil texture and hydraulics
soil.theta2psiVG Soil texture and hydraulics
soil.thetaFC Soil texture and hydraulics
soil.thetaSAT Soil texture and hydraulics
soil.thetaSATSX Soil texture and hydraulics
soil.thetaWP Soil texture and hydraulics
soil.USDAType Soil texture and hydraulics
soil.vanGenuchtenParamsCarsel Soil texture and hydraulics
soil.vanGenuchtenParamsToth Soil texture and hydraulics
soil.waterFC Soil texture and hydraulics
soil.waterSAT Soil texture and hydraulics
soil.waterTableDepth Soil texture and hydraulics
soil.waterWP Soil texture and hydraulics
soilgridsParams SoilGrids soil description fetcher
spatialForestSummary Forest and soil summaries over space
spatialForestSummary-method Forest and soil summaries over space
spatialForestSummary-methods Forest and soil summaries over space
SpatialGridLandscape Creates Spatial Landscape Classes
SpatialGridLandscape-class Class '"SpatialGridLandscape"'
SpatialPixelsLandscape Creates Spatial Landscape Classes
SpatialPixelsLandscape-class Class '"SpatialPixelsLandscape"'
SpatialPointsLandscape Creates Spatial Landscape Classes
SpatialPointsLandscape-class Class '"SpatialPointsLandscape"'
spatialSoilSummary Forest and soil summaries over space
spatialSoilSummary-method Forest and soil summaries over space
spatialSoilSummary-methods Forest and soil summaries over space
species.BasalArea Species description functions
SpParamsMED Parameter values for Mediterranean species
spwb Soil-plant water balance
spwb.day Soil-plant water balance for a single day
spwb.ldrCalibration Calibration of root distribution
spwb.ldrOptimization Optimization of root distribution
spwb.resetInputs Soil-plant water balance
spwb.resistances Soil-plant resistances
spwb.stress Drought stress indices
spwbgrid Soil-plant water balance and lateral water discharge
spwbInput Input for simulation models
spwbpoints Model simulations for spatially-distributed forest stands
summary.forest Forest description
summary.growth Displays simulation results
summary.spwb Displays simulation results

-- T --

tail-method Class '"SpatialPointsLandscape"'
translateSpeciesCodes Extract forest from SFI data
transp.profitMaximization Transpiration submodel functions
transp.stomatalRegulation Transpiration submodel functions
transp.stomatalRegulationPlot Transpiration submodel functions

-- V --

vprofile.FuelBulkDensity Vertical profiles
vprofile.LeafAreaDensity Vertical profiles
vprofile.PARExtinction Vertical profiles
vprofile.RootDistribution Vertical profiles
vprofile.SWRExtinction Vertical profiles
vprofile.WindExtinction Vertical profiles

-- misc --

[-method Class '"SpatialPointsLandscape"'