Read in the Portal data files — load_rodent

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

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