Vertical profiles

Source: R/VerticalProfiles.R

Functions to generate vertical profiles generated by an input forest object.

vprofile_leafAreaDensity(
  x,
  SpParams = NULL,
  z = NULL,
  gdd = NA,
  byCohorts = FALSE,
  bySpecies = FALSE,
  includeHerbs = FALSE,
  draw = TRUE,
  xlim = NULL
)

vprofile_rootDistribution(
  x,
  SpParams,
  d = NULL,
  bySpecies = FALSE,
  draw = TRUE,
  xlim = NULL
)

vprofile_fuelBulkDensity(
  x,
  SpParams,
  z = NULL,
  gdd = NA,
  draw = TRUE,
  xlim = NULL
)

vprofile_PARExtinction(
  x,
  SpParams,
  z = NULL,
  gdd = NA,
  includeHerbs = FALSE,
  draw = TRUE,
  xlim = c(0, 100)
)

vprofile_SWRExtinction(
  x,
  SpParams,
  z = NULL,
  gdd = NA,
  includeHerbs = FALSE,
  draw = TRUE,
  xlim = c(0, 100)
)

vprofile_windExtinction(
  x,
  SpParams,
  u = 1,
  windMeasurementHeight = 200,
  boundaryLayerSize = 2000,
  target = "windspeed",
  z = NULL,
  gdd = NA,
  includeHerbs = FALSE,
  draw = TRUE,
  xlim = NULL
)

Arguments

x

An object of class forest

SpParams

A data frame with species parameters (see SpParamsMED).

z

A numeric vector with height values.

gdd

Growth degree days.

byCohorts

Separate profiles for each cohort.

bySpecies

Aggregate cohort profiles by species.

includeHerbs

Include herbaceous layer in the profile.

draw

Logical flag to indicate that a plot is desired.

xlim

Limits of the x-axis.

d

A numeric vector with soil layer widths.

u

The value of measured wind speed (in m/s).

windMeasurementHeight

Height corresponding to wind measurement (in cm over the canopy).

boundaryLayerSize

Size of the boundary layer (in cm) over the canopy.

target

Wind property to draw, either "windspeed", "kineticenergy" (turbulent kinetic energy) or "stress" (Reynold's stress).

Value

If draw = FALSE, the functions return a numeric vector with values measured at each height. Units depend on the profile function:

  • vprofile_leafAreaDensity: Cumulative LAI (m2/m2) per height bin.

  • vprofile_fuelBulkDensity: Fuel bulk density (kg/m3) per height bin.

  • vprofile_PARExtinction: Percent of photosynthetically active radiation (%) corresponding to each height.

  • vprofile_SWRExtinction: Percent of shortwave radiation (%) corresponding to each height.

  • vprofile_windExtinction: Wind speed (m/s) corresponding to each height.

If draw = TRUE the functions return a ggplot object, instead.

Author

Miquel De Cáceres Ainsa, CREAF

Examples

#Default species parameterization
data(SpParamsMED)

#Load example plot plant data
data(exampleforest)

vprofile_leafAreaDensity(exampleforest, SpParamsMED)

vprofile_fuelBulkDensity(exampleforest, SpParamsMED)


vprofile_PARExtinction(exampleforest, SpParamsMED)

vprofile_SWRExtinction(exampleforest, SpParamsMED)


vprofile_windExtinction(exampleforest, SpParamsMED)