load_rodent_data {portalr}

Read in the Portal data files

Description

Loads Portal data files from either a user-defined path or the online Github repository. If the user-defined path is un- available, the default option is to download to that location.

load_rodent_data loads the rodent data files

load_plant_data loads the plant data files

load_ant_data loads the ant data files

load_trapping_data loads just the rodent trapping files

Usage

load_rodent_data(
  path = get_default_data_path(),
  download_if_missing = TRUE,
  clean = TRUE,
  quiet = FALSE
)

load_plant_data(
  path = get_default_data_path(),
  download_if_missing = TRUE,
  quiet = FALSE
)

load_ant_data(
  path = get_default_data_path(),
  download_if_missing = TRUE,
  quiet = FALSE
)

load_trapping_data(
  path = get_default_data_path(),
  download_if_missing = TRUE,
  clean = TRUE,
  quiet = FALSE
)

Arguments

path

either the file path that contains the PortalData folder or "repo", which then pulls data from the PortalData GitHub repository

download_if_missing

if the specified file path doesn't have the PortalData folder, then download it

clean

logical, load only QA/QC rodent data (TRUE) or all data (FALSE)

quiet

logical, whether to run without version messages

Value

load_rodent_data returns a list of 5 dataframes:

rodent_data	raw data on rodent captures
species_table	species code, names, types
trapping_table	when each plot was trapped
newmoons_table	pairs census periods with newmoons
plots_table	rodent treatment assignments for each plot

load_plant_data returns a list of 7 dataframes:

quadrat_data	raw plant quadrat data
species_table	species code, names, types
census_table	indicates whether each quadrat was counted in each census; area of each quadrat
date_table	start and end date of each plant census
plots_table	rodent treatment assignments for each plot
transect_data	raw plant transect data with length and height (2015-present)
oldtransect_data	raw plant transect data as point counts (1989-2009)

load_ant_data returns a list of 4 dataframes:

bait_data	raw ant bait data
colony_data	raw ant colony data
species_table	species code, names, types
plots_table	treatment assignments for each plot

load_trapping_data returns a list of 2 dataframes:

trapping_table	when each plot was trapped
newmoons_table	pairs census periods with newmoons