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medfate (version 4.8.3)

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

403

Version

4.8.3

License

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

Issues

2

Pull Requests

0

Stars

13

Forks

8

Maintainer

Miquel Caceres

Last Published

August 27th, 2025

Functions in medfate (4.8.3)

evaluation

Evaluation of simulations results
exampleobs

Example observed data
fordyn

Forest dynamics
droughtStress

Drought stress indicators
emptyforest

Creation of an empty forest
fireHazard

Fire hazard
extract

Extracts model outputs
fire_severity

Fire severity functions
fire_behaviour

Fire behaviour functions
examplemeteo

Example daily meteorology data
herb_values

Herbaceous description functions
fuel_properties

Fuel stratification and fuel characteristics
forest_mapWoodyTables

Map forest plot data
forest_simplification

Forest complexity reduction
fuel_windAdjustmentFactor

Wind adjustment factor for Rothermel's model
forest

Description of a forest stand.
growth

Forest growth
forest2aboveground

Input for simulation models (deprecated)
hydraulics_conductancefunctions

Hydraulic confuctance functions
hydraulics_defoliation

Hydraulic-related defoliation
light_advanced

Advanced radiation transfer functions
hydrology_rainfallIntensity

Rainfall interception
hydraulics_supplyfunctions

Hydraulic supply functions
hydrology_soilWaterBalance

Soil water balance
light_basic

Radiation extinction functions used in basic transpiration sub-model
hydrology_snowMelt

Water vertical inputs
hydrology_soilEvaporationAmount

Bare soil evaporation and herbaceous transpiration
medfate-package

medfate: Mediterranean Forest Simulation
hydrology_infiltration

Soil infiltration
hydraulics_scalingconductance

Scaling from conductivity to conductance
moisture

Tissue moisture functions
modifyParams

Modify parameters
plot.spwb

Plots simulation results
photo

Photosynthesis submodel functions
modelInput

Input for simulation models
plot.forest

Plot forest attributes
plant_values

Woody plant cohort description functions
mortality_dailyProbability

Mortality
optimization

Multiple model runs and function factories for optimization routines
pheno_updateLeaves

Leaf phenology
shinyplot

Shiny app with interactive plots
resetInputs

Reset simulation inputs
root

Root functions
resistances

Soil-plant resistances
soil

Soil initialization
plot.spwb_day

Plots simulation results for one day
soil_redefineLayers

Redefine soil layer widths
soil_retentionCurvePlot

Soil water retention and conductivity plots
poblet_trees

Example forest inventory data
regeneration

Plant regeneration
species_values

Species description functions
summary.forest

Summary of forest structure
summary.spwb

Summarize simulation results
growth_day

Single-day simulation
spwb

Soil-plant water balance
sureau_ecos

Sureau-ECOS inner functions for testing only
soil_thermodynamics

Soil thermodynamic functions
transp_maximumTranspirationModel

Maximum transpiration vs. LAI
stand_basalArea

Stand values
soil_texture

Soil texture and hydraulics
wind

Models for canopy turbulence
waterUseEfficiency

Water use efficiency
utils_ldrExploration

Optimization of root distribution
tree2forest

Single-cohort forests
utils_rockOptimization

Optimization of rock fragment content
vprofile_leafAreaDensity

Vertical profiles
transp_stomatalregulation

Stomatal regulation
transp_transpirationSperry

Transpiration modes
woodformation

Wood formation
aspwbInput

Simulation in agricultural areas
defaultManagementFunction

Default forest management actions
defaultSoilParams

Default soil parameters
defaultControl

Control parameters for simulation models
SFM_metric

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

Carbon-related functions
Parameter means

Parameter average values
SpParams

Data tables with species parameter definitions and values
biophysics

Physical and biophysical utility functions
aspwb_day_inner

Internal communication