Package index • portalr

Data Retrieval

Functions to download and update data

download_observations(): Download the PortalData repo

check_for_newer_data(): Check for latest version of data files

check_default_data_path() get_default_data_path() use_default_data_path(): Manage the default path for downloading Portal Data into

get_dataset_citation(): Return Citation for Portal Data

Data Summaries

Functions to return data summaries

summarize_rodent_data() abundance() biomass() energy() rates() summarise_rodent_data(): Generate summaries of Portal rodent data

summarize_plant_data() plant_abundance() summarise_plant_data(): Generate summaries of Portal plant data

summarize_individual_rodents() summarise_individual_rodents(): Return cleaned Portal rodent individual data

ndvi(): NDVI by calendar month or lunar month

weather(): Weather by day, calendar month, or lunar month

bait_presence_absence(): Ant Bait Presence Absence

colony_presence_absence(): Ant Colony Presence Absence

shrub_cover(): Generate percent cover from Portal plant transect data

fcast_ndvi(): Forecast ndvi using a seasonal auto ARIMA

get_future_newmoons(): Get future newmoon dates and numbers

phenocam(): Phenocam data products by day, calendar month, or lunar month

Unprocessed Data

Functions to load in raw or otherwise unprocessed data

load_datafile(): read in a raw datafile from the downloaded data or the GitHub repo

load_rodent_data() load_plant_data() load_ant_data() load_trapping_data(): Read in the Portal data files

print(<portal_data_list>): Prints a portal_data_list object

Data Processing

Functions to do various data processing steps

add_seasons() yearly(): Add Seasons

clean_plant_data(): Do basic cleaning of Portal plant data

clean_rodent_data(): Do basic cleaning of Portal rodent data

fill_missing_ndvi(): Fill in historic ndvi data to the complete timeseries being fit

find_incomplete_censuses(): Period code for incomplete censuses

Utilities

Formatting

na_conformer(): Conform NA entries to "NA" entries

return_if_null(): If a Value is NULL, Trigger the Parent Function's Return

rodent_species() forecasting_species(): Rodent species abbreviations

portalr-package portalr: Creates summaries of the Portal data