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medfate (version 3.1.4)

Mediterranean Forest Simulation

Description

Simulate Mediterranean forest functioning and dynamics using cohort-based description of vegetation [De Caceres et al. (2015) ; De Caceres et al. (2021) ].

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Version

Install

install.packages('medfate')

Monthly Downloads

429

Version

3.1.4

License

GPL (>= 2) | LGPL (>= 3)

Maintainer

Miquel Caceres

Last Published

August 29th, 2023

Functions in medfate (3.1.4)

defaultSoilParams

Default soil parameters
biophysics

Physical and biophysical utility functions
fire_severity

Fire severity functions
fordyn

Forest dynamics
forest

Forest description
exampleforest

Example forest stands
examplemeteo

Example daily meteorology data
forest_mergeTrees

Forest merge functions
fireHazard

Fire hazard
fire_behaviour

Fire behaviour functions
extractSubdaily

Extracts subdaily output
exampleobs

Example observed data
fuel_properties

Fuel stratification and fuel characteristics
hydrology_verticalInputs

Soil vertical inputs
herb_values

Herbaceous description functions
light

Radiation transfer functions
hydraulics_conductancefunctions

Hydraulic confuctance functions
growth

Forest growth
hydraulics_supplyfunctions

Hydraulic supply functions
hydraulics_scalingconductance

Scaling from conductivity to conductance
hydrology_soilEvaporationAmount

Soil infiltration, percolation and bare soil evaporation
hydrology_erFactor

Rainfall interception
forest2aboveground

Input for simulation models
medfate-package

medfate: Mediterranean Forest Simulation
plot.forest

Plot forest attributes
plant_values

Woody plant cohort description functions
modifyParams

Modify parameters
optimization

Multiple model runs and function factories for optimization routines
mortality_dailyProbability

Mortality
plot.spwb

Plots simulation results
resistances

Soil-plant resistances
root

Root functions
soil_texture

Soil texture and hydraulics
moisture

Tissue moisture functions
soil_thermodynamics

Soil thermodynamic functions
shinyplot

Shiny app with interactive plots
plot.spwb_day

Plots simulation results for one day
species_values

Species description functions
sureau_ecos

Sureau-ECOS inner functions for testing only
summary.spwb

Summarize simulation results
pheno_updateLeaves

Leaf phenology
soil

Soil initialization
growth_day

Single-day simulation
photo

Photosynthesis submodel functions
transp_transpirationSperry

Transpiration modes
transp_maximumTranspirationModel

Maximum transpiration vs. LAI
woodformation

Wood formation
stand_basalArea

Stand values
regeneration

Plant regeneration
resetInputs

Reset simulation inputs
transp_stomatalregulation

Stomatal regulation
spwb

Soil-plant water balance
vprofile_leafAreaDensity

Vertical profiles
waterUseEfficiency

Water use efficiency
wind

Models for canopy turbulence
carbon

Carbon-related functions
droughtStress

Drought stress indicators
evaluation

Evaluation of simulations results
defaultControl

Control parameters for simulation models
Parameter means

Parameter average values
defaultManagementFunction

Default forest management actions
SFM_metric

Standard fuel models (Albini 1976, Scott & Burgan 2005)
SpParams

Data tables with species parameter definition and values for Mediterranean and US