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medfate (version 5.1.0)

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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Install

install.packages('medfate')

Monthly Downloads

299

Version

5.1.0

License

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

Issues

2

Pull Requests

0

Stars

14

Forks

8

Maintainer

Miquel Caceres

Last Published

September 3rd, 2026

Functions in medfate (5.1.0)

examplemeteo

Example daily meteorology data
extract

Extracts model outputs
defaultSoilParams

Default soil parameters
fireHazard

Fire hazard
emptyforest

Creation of an empty forest
defaultManagementFunction

Default forest management actions
droughtStress

Drought stress indicators
fire_behaviour

Fire behaviour functions
evaluation

Evaluation of simulations results
exampleobs

Example observed data
growth

Forest growth
fuel_windAdjustmentFactor

Wind adjustment factor for Rothermel's model
forest_simplification

Forest complexity reduction
fuel_properties

Fuel stratification and fuel characteristics
growth_day

Single-day forest growth
forest_mapWoodyTables

Map forest plot data
fordyn

Forest dynamics
forest2aboveground

Input for simulation models (deprecated)
forest

Description of a forest stand.
fire_severity

Fire severity functions
hydraulics_averagePsi

Hydraulic conductance functions
hydraulics_scalingconductance

Scaling from conductivity to conductance
hydrology_soilEvaporation

Bare soil evaporation and herbaceous transpiration
hydrology_verticalInputs

Water vertical inputs
hydrology_infiltrationRepartition

Soil infiltration
hydrology_soilWaterBalance

Soil water balance
hydrology_rainfallIntensity

Rainfall interception
herb_values

Herbaceous description functions
hydraulics_defoliation

Hydraulic-related defoliation
hydraulics_E2psiBelowground

Hydraulic supply functions
mortality_dailyProbability

Mortality
optimization

Multiple model runs and function factories for optimization routines
modelInput

Input for simulation models
modifyParams

Modify parameters
light_basic

Radiation extinction functions used in basic transpiration sub-model
moisture

Tissue moisture functions
pheno_updateLeaves

Leaf phenology
light_advanced

Advanced radiation transfer functions
medfate-package

medfate: Mediterranean Forest Simulation
photo_photosynthesis

Photosynthesis submodel functions
resetInputs

Reset simulation inputs
plot.soil

Soil water curves
pwb

Plant water balance
plot.spwb

Plots simulation results
resistances

Soil-plant resistances
plot.forest

Plot forest attributes
plot.spwb_day

Plots simulation results for one day
plant_values

Woody plant cohort description functions
poblet_trees

Example forest inventory data
regeneration

Plant regeneration
runners

Rcpp module: Running simulations
soil

Soil initialization
spwb

Soil-plant water balance
soil_redefineLayers

Redefine soil layer widths
shinyplot

Shiny app with interactive plots
species_values

Species description functions
root

Root functions
soil_thermodynamics

Soil thermodynamic functions
soil_retentionCurvePlot

Soil water retention and conductivity plots
soil_USDAType

Soil texture and hydraulics
summary.spwb

Summarize simulation results
spwb_day

Single-day soil-plant water balance
stand_basalArea

Stand values
tree2forest

Single-cohort forests
utils_ldrExploration

Optimization of root distribution
transp_maximumTranspirationModel

Maximum transpiration vs. LAI
transp_stomatalregulation

Stomatal regulation
wind

Models for canopy turbulence
utils_rockOptimization

Optimization of rock fragment content
waterUseEfficiency

Water use efficiency
sureau_ecos

Sureau-ECOS inner functions for testing only
summary.forest

Summary of forest structure
woodformation

Wood formation
vprofile_leafAreaDensity

Vertical profiles
transp_transpirationSperry

Transpiration modes
biophysics

Physical and biophysical utility functions
defaultControl

Control parameters for simulation models
Parameter means

Parameter average values
decomposition_DAYCENT

DAYCENT decomposition
carbon_belowgroundSapwoodStructuralBiomass

Carbon-related functions
communication

Internal communication
SFM_metric

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

Data tables with species parameter definitions and values
decomposition_pHEffect

Low-level decomposition functions
aspwbInput

Simulation in agricultural areas