plant_values {medfate}R Documentation

Woody plant cohort description functions

Description

Functions to calculate attributes of woody plants in a forest object.

Usage

plant_ID(x, SpParams, treeOffset = 0L, shrubOffset = 0L)

plant_basalArea(x, SpParams)

plant_largerTreeBasalArea(x, SpParams, self_proportion = 0.5)

plant_cover(x, SpParams)

plant_species(x, SpParams)

plant_speciesName(x, SpParams)

plant_density(x, SpParams)

plant_height(x, SpParams)

plant_individualArea(x, SpParams)

plant_crownRatio(x, SpParams)

plant_crownBaseHeight(x, SpParams)

plant_crownLength(x, SpParams)

plant_foliarBiomass(x, SpParams, gdd = NA_real_, competitionEffect = TRUE)

plant_fuelLoading(x, SpParams, gdd = NA_real_, includeDead = TRUE)

plant_equilibriumLeafLitter(x, SpParams, AET = 800)

plant_equilibriumSmallBranchLitter(
  x,
  SpParams,
  smallBranchDecompositionRate = 0.81
)

plant_phytovolume(x, SpParams)

plant_LAI(
  x,
  SpParams,
  gdd = NA_real_,
  bounded = TRUE,
  competitionEffect = TRUE
)

plant_characterParameter(x, SpParams, parName)

plant_parameter(x, SpParams, parName, fillMissing = TRUE, fillWithGenus = TRUE)

Arguments

x

An object of class forest.

SpParams

A data frame with species parameters (see SpParamsMED).

treeOffset, shrubOffset

Integers to offset cohort IDs.

self_proportion

Proportion of the target cohort included in the assessment

gdd

Growth degree days (to account for leaf phenology effects).

competitionEffect

Logical flag to indicate the inclusion of competition effect on LAI estimates.

includeDead

A flag to indicate that standing dead fuels (dead branches) are included.

AET

Actual annual evapotranspiration (in mm).

smallBranchDecompositionRate

Decomposition rate of small branches.

bounded

A boolean flag to indicate that extreme values should be prevented (maximum tree LAI = 7 and maximum shrub LAI = 3)

parName

A string with a parameter name.

fillMissing

A boolean flag to try imputation on missing values.

fillWithGenus

A boolean flag to try imputation of missing values using genus values.

Value

A vector with values for each woody plant cohort of the input forest object:

Author(s)

Miquel De Cáceres Ainsa, CREAF

See Also

spwb, forest, summary.forest

Examples

#Default species parameterization
data(SpParamsMED)

#Load example plot
data(exampleforest)

#A plant-level way to obtain stand basal area
sum(plant_basalArea(exampleforest, SpParamsMED), na.rm=TRUE)

#The analogous plant-level function for LAI
sum(plant_LAI(exampleforest, SpParamsMED))
  
#The analogous plant-level function for fuel loading
sum(plant_fuelLoading(exampleforest, SpParamsMED))
      
#Summary function for 'forest' objects can be also used
summary(exampleforest, SpParamsMED)

#Cohort IDs in the models
plant_ID(exampleforest, SpParamsMED)
      

[Package medfate version 4.7.0 Index]