joinQuadData: joinQuadData: compiles quadrat species data

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

Description

This function combines quadrat species cover data with species names and allows you to filter on species types, park, years, and visit type. Note that the Shrub guild also includes woody vine species. Note that quadrat seedling data, including percent cover and quadrat frequency of tree species that are seedling sized are reported in joinRegenData and not summarized here.

Usage

joinQuadData(
  speciesType = c("all", "native", "native_noROBPSE", "exotic"),
  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

Value

Returns a dataframe with average quadrat cover and quadrat frequency for each species detected in the quadrats species section of the protocol. Starting in 2019 all woody species were estimated for percent cover and all life stages were lumped into one percent cover estimate. The new_2019 column indicates whether a species was recorded in avg.cover and avg.freq because of the protocol change in 2019. Seedling-sized tree species will continue to get percent cover estimates for 2019-2022 to maintain protocol overlap, and these data are covered in joinRegenData().

Examples

importData()
# compile quadrat data for exotic species in PETE for all years
PETE_quads <- joinQuadData(park = 'PETE', speciesType = 'exotic')

# compile native species only for all parks in most recent survey
native_quads <- joinQuadData(speciesType = 'native', from = 2015, to = 2018)

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