joinRegenData: joinRegenData: compiles seedling and sapling data

In KateMMiller/forestMIDNarch: Package for importing, joining and querying MS Access based MIDN forest database tables.

Description

This function combines seedling and sapling data, and calculates stocking index at the 1 sq. m level. Quadrat percent cover is also averaged across the quadrats, and only includes cover of seedling sized tree species (i.e. the original protocol method). Stocking index thresholds are 2 for areas with low deer, and 8 for areas with high deer. Must run importData first.

Usage

joinRegenData(
  speciesType = c("all", "native", "native_noROBPSE", "exotic"),
  canopyForm = c("canopy", "all"),
  units = c("sq.m", "ha", "acres"),
  park = "all",
  from = 2007,
  to = 2019,
  QAQC = FALSE,
  locType = "VS",
  panels = 1:4,
  output,
  ...
)

Arguments

speciesType	Allows you to filter on native, exotic or include all species. "all" Default. Returns all species "native" Returns native species only, including Robinia pseudoacacia "native_noROBPSE" Returns native species except Robinia pseudoacacia "exotic" Returns exotic species only, not including Robinia pseudoacacia
canopyForm	Allows you to filter on canopy species only or include all species. "all" Returns all species, including low canopy species. "canopy" Default. Returns canopy-forming species only
units	Calculates seedling and sapling densities based on different units. "sq.m" Default. Returns seedling and sapling densities per square meter. "ha" Returns seedling and sapling densities per hectare "acres" Returns densities per acre

Value

returns a dataframe with seedling and sapling densities, stocking index, quadrat seedling cover and quadrat seedling frequency. Quadrat frequency is based on cover > 0 in a quadrat.

Examples

importCSV('./forest_csvs/')
# Compile seedling and sapling data for all parks and all species in most recent cycle,
# and only include seedlings >=15cm tall (default).
regen_data <- joinRegenData(canopyForm = 'all', from = 2015, to = 2018)

# compile regen data for canopy-forming (default), native species of all size classes in VAFO for all years
VAFO_regen <- joinRegenData(park = 'VAFO', speciesType = 'native')

# Compile seedling and sapling densities as stems/ha for all parks in most recent survey
regen_data <- joinRegenData(units = 'ha', from = 2015, to = 2018)

KateMMiller/forestMIDNarch documentation built on April 9, 2021, 3:50 p.m.