regeneration {medfate}R Documentation

Plant regeneration

Description

Functions to simulate annual plant regeneration from seed recruitment or from resprouting

Usage

regeneration_seedproduction(forest, SpParams, control)

regeneration_seedrefill(seedBank, refillSpecies, refillPercent = NULL)

regeneration_seedmortality(seedBank, SpParams, minPercent = 1)

regeneration_recruitment(
  forest,
  SpParams,
  control,
  minMonthTemp,
  moistureIndex,
  verbose = FALSE
)

regeneration_resprouting(
  forest,
  internalMortality,
  SpParams,
  control,
  management_results = NULL
)

Arguments

forest

An object of class forest.

SpParams

A data frame with species parameters (see SpParamsMED and SpParamsDefinition).

control

A list with default control parameters (see defaultControl).

seedBank

A data frame with columns 'Species' and 'Percent', describing a seed bank.

refillSpecies

A string vector of species names corresponding to seed rain to refill seed bank.

refillPercent

A numeric vector of indicating the percentage of seed bank refilling (if missing then seed bank is set to 100%).

minPercent

A minimum percent of seed bank to retain entry in seedBank element of forest.

minMonthTemp

Minimum month temperature.

moistureIndex

Moisture index (annual precipitation over annual potential evapotranspiration).

verbose

Boolean flag to indicate console output during calculations.

internalMortality

A data frame with mortality occurred in the last year of simulation.

management_results

The result of calling a management function (see defaultManagementFunction).

Details

Value

Author(s)

Miquel De Cáceres Ainsa, CREAF

See Also

fordyn

Examples

#Load example plot plant data
data(exampleforest)

#Default species parameterization
data(SpParamsMED)

#Initialize control parameters
control <- defaultControl("Granier")
control$recruitmentMode = "deterministic" 

#Recruitment limits
plant_parameter(exampleforest, SpParamsMED, "MinTempRecr")
plant_parameter(exampleforest, SpParamsMED, "MinMoistureRecr")

#Compare seed recruitment outcomes
regeneration_recruitment(exampleforest, SpParamsMED, control, 0, 0.25)
regeneration_recruitment(exampleforest, SpParamsMED, control, 3, 0.25)


[Package medfate version 4.7.0 Index]