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medfate (version 5.0.0)

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

357

Version

5.0.0

License

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

Issues

3

Pull Requests

0

Stars

13

Forks

8

Maintainer

Miquel Caceres

Last Published

May 6th, 2026

Functions in medfate (5.0.0)

biophysics

Physical and biophysical utility functions
fire_behaviour

Fire behaviour functions
emptyforest

Creation of an empty forest
fireHazard

Fire hazard
droughtStress

Drought stress indicators
defaultManagementFunction

Default forest management actions
evaluation

Evaluation of simulations results
examplemeteo

Example daily meteorology data
extract

Extracts model outputs
defaultSoilParams

Default soil parameters
exampleobs

Example observed data
fuel_windAdjustmentFactor

Wind adjustment factor for Rothermel's model
fire_severity

Fire severity functions
fuel_properties

Fuel stratification and fuel characteristics
forest

Description of a forest stand.
forest2aboveground

Input for simulation models (deprecated)
growth

Forest growth
growth_day

Single-day forest growth
fordyn

Forest dynamics
forest_simplification

Forest complexity reduction
forest_mapWoodyTables

Map forest plot data
hydrology_rainfallIntensity

Rainfall interception
herb_values

Herbaceous description functions
hydraulics_defoliation

Hydraulic-related defoliation
hydrology_infiltrationRepartition

Soil infiltration
hydraulics_averagePsi

Hydraulic conductance functions
hydraulics_scalingconductance

Scaling from conductivity to conductance
hydrology_verticalInputs

Water vertical inputs
hydrology_soilWaterBalance

Soil water balance
hydraulics_E2psiBelowground

Hydraulic supply functions
hydrology_soilEvaporation

Bare soil evaporation and herbaceous transpiration
medfate-package

medfate: Mediterranean Forest Simulation
pheno_updateLeaves

Leaf phenology
modifyParams

Modify parameters
modelInput

Input for simulation models
optimization

Multiple model runs and function factories for optimization routines
mortality_dailyProbability

Mortality
photo_photosynthesis

Photosynthesis submodel functions
moisture

Tissue moisture functions
light_advanced

Advanced radiation transfer functions
light_basic

Radiation extinction functions used in basic transpiration sub-model
resetInputs

Reset simulation inputs
resistances

Soil-plant resistances
plot.forest

Plot forest attributes
poblet_trees

Example forest inventory data
plot.spwb_day

Plots simulation results for one day
plot.soil

Soil water curves
plot.spwb

Plots simulation results
plant_values

Woody plant cohort description functions
pwb

Plant water balance
regeneration

Plant regeneration
spwb

Soil-plant water balance
species_values

Species description functions
soil_USDAType

Soil texture and hydraulics
soil_thermodynamics

Soil thermodynamic functions
soil_redefineLayers

Redefine soil layer widths
soil_retentionCurvePlot

Soil water retention and conductivity plots
runners

Rcpp module: Running simulations
root

Root functions
transp_stomatalregulation

Stomatal regulation
transp_transpirationSperry

Transpiration modes
shinyplot

Shiny app with interactive plots
spwb_day

Single-day soil-plant water balance
soil

Soil initialization
stand_basalArea

Stand values
utils_ldrExploration

Optimization of root distribution
tree2forest

Single-cohort forests
vprofile_leafAreaDensity

Vertical profiles
utils_rockOptimization

Optimization of rock fragment content
waterUseEfficiency

Water use efficiency
summary.forest

Summary of forest structure
summary.spwb

Summarize simulation results
wind

Models for canopy turbulence
transp_maximumTranspirationModel

Maximum transpiration vs. LAI
sureau_ecos

Sureau-ECOS inner functions for testing only
woodformation

Wood formation
communication

Internal communication
decomposition_pHEffect

Low-level decomposition functions
aspwbInput

Simulation in agricultural areas
defaultControl

Control parameters for simulation models
SFM_metric

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

Data tables with species parameter definitions and values
carbon_belowgroundSapwoodStructuralBiomass

Carbon-related functions
decomposition_DAYCENT

DAYCENT decomposition
Parameter means

Parameter average values