Package index • forecasttools

All functions

bottom_up_aggregation(): Bottom up aggregration of base forecasts

categorize_prism(): Categorize a vector of values into PRISM activity level bins.

categorize_vector(): Catgeorize entries in a numeric vector according to a list of breakpoints and labels.

copula2tbl(): Convert Copula Samples to a Tibble

count_trajectories(): Count the number of trajectories per location

daily_to_epiweekly(): Aggregate a daily timeseries to epiweekly

download_hub(): Download a forecast hub from hub_url to directory hub_path.

epiweek_to_date(): Get a date from an epiweek and epiyear

epiyear_first_date(): Get the first date of an epidemiological year ("epiyear")

ex_inferencedata_dataframe: Example InferenceData DataFrame

example_daily_forecast_flu: An example daily-resolution set of forecast trajectories for influenza.

gather_hub_location_data(): Gather location data from a forecast hub.

gather_hub_quantile_forecasts(): Collect and reformat hub forecasts for scoring.

gather_hub_target_data(): Gather target truth data from a forecast hub.

get_epiweek_start(): Get the start day of an epiweek.

get_hubverse_table(): Given a set of epiweekly quantile forecasts, format them for a hubverse submission

get_prism_cutpoints(): Get PRISM activity level cutpoints for given diseases and locations

hub_to_scorable_quantiles(): Create a table for scoring hub model quantile forecasts from a local copy of a hub.

hubverse_table_with_obs(): Join hubverse forecasts to observed data

idata_names_to_tidy_names(): Convert InferenceData column names to tidy column names

inferencedata_to_tidy_draws(): Convert InferenceData DataFrame to nested tibble of tidy_draws

location_lookup(): Look up rows of the USA location table corresponding to the entries of a given vector.

nhsn_soda_query(): Construct a Socrata open data API (SODA) query for the NHSN Hospital Respiratory Data set.

nullable_comparison(): Compare two quantities a and b with a given comparison operator, returning a single TRUE if b is NULL.

pivot_hubverse_quantiles_wider(): Pivot a hubverse quantile table wider with columns representing individual quantile levels.

plot_coverage_by_date(): Plot of empirical forecast coverage by reference date.

plot_hubverse_file_quantiles(): Plot hubverse formatted forecasts for all or a subset of forecasted locations.

plot_hubverse_loc_quant_ts(): Plot a hubverse formatted quantile forecast timeseries for a single location.

plot_hubverse_pointintervals(): Plot a table of hubverse-formatted forecasts as pointintervals

plot_pred_obs_by_forecast_date(): Plot median predictions and prediction intervals against observed data by forecast date.

plot_quantile_timeseries(): Plot a timeseries of quantiles.

plots_to_pdf(): Save a list of ggplot plots as a PDF, with a grid of nrow by ncol plots per page

prism_thresholds: PRISM respiratory virus activity level thresholds

pull_nhsn(): Pull NHSN data from data.cdc.gov

quantile_table_to_scorable(): create a scoringutils-ready table.

rank_sampled_trajectories(): Rank sampled trajectories

read_tabular_file(): Read a tabular file to a tibble, inferring format from the file extension if it is not specified.

sample_aggregated_trajectories(): Generate sample trajectories based on ranked base forecasts

scale_fill_prism() scale_color_prism() scale_colour_prism(): Prism color scale

soql_nullable_is_in(): Add an "is in" statement to a SOQL query, or return the original query if match_values is NULL.

soql_nullable_select(): Add a soql::soql_select() statement to a query to select a set of columns columns, or return the original query if columns is NULL.

soql_nullable_where(): Add a soql::soql_where() statement to a SOQL query, or return the original query if where_value is NULL.

target_end_dates_from_horizons(): Get a correctly-formatted set of hubverse target_end_date values for the given reference date and set of horizons.

theme_forecasttools(): forecasttools ggplot2 theme.

to_location_table_column(): Map location format strings to corresponding location lookup table column names.

trajectories_to_quantiles(): Aggregate individual trajectory timeseries or forecasts to quantile timeseries or forecasts

update_hub(): Update the forecast hub located at the path hub_path.

us_loc_abbr_to_code(): Convert a two-letter USA location abbreviation to a two-character USA location code

us_loc_code_to_abbr(): Convert a 2-character USA location code to a 2-letter USA location abbreviation.

us_location_table: Table of US location names and codes

validate_base_forecasts(): Validate the base forecasts