Package: focustools 0.2.0

VP Nagraj

focustools: Forecasting COVID-19 in the United States (FOCUS) tools

Miscellaneous functions for retrieving data, creating and evaluating time series forecasting models for COVID-19 cases and deaths in the United States. Built for participation in the COVID-19 Forecast Hub.

Authors:VP Nagraj [aut, cre], Stephen Turner [aut], Stephanie Guertin [aut], Chris Hulme-Lowe [aut]

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focustools.pdf |focustools.html✨
focustools/json (API)
NEWS

# Install 'focustools' in R:

install.packages('focustools', repos = c('https://stephenturner.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/signaturescience/focustools/issues

On CRAN:

15 exports 0.09 score 97 dependencies 4 scripts

Last updated 2 years agofrom:eb0fb54bc2. Checks:ERROR: 1 WARNING: 6. Indexed: no.

Target	Result	Date
Doc / Vignettes	FAIL	Sep 13 2024
R-4.5-win	WARNING	Sep 13 2024
R-4.5-linux	WARNING	Sep 13 2024
R-4.4-win	WARNING	Sep 13 2024
R-4.4-mac	WARNING	Sep 13 2024
R-4.3-win	WARNING	Sep 13 2024
R-4.3-mac	WARNING	Sep 13 2024

Exports:%>%extract_arima_params focus_explorer format_for_submission get_cases get_deaths is_monday make_tsibble plot_forecast submission_summary this_monday ts_fit ts_forecast ts_futurecases validate_forecast

Dependencies:anytime askpass base64enc BH bit bit64 bslib cachem cli clipr colorspace commonmark cpp11 crayon curl digest distributional dplyr ellipsis fable fabletools fansi farver fastmap feasts fontawesome fs generics ggdist ggplot2 glue gtable here hms htmltools httpuv httr isoband jquerylib jsonlite labeling later lattice lifecycle lubridate magrittr MASS Matrix memoise mgcv mime MMWRweek munsell nlme numDeriv openssl pillar pkgconfig png prettyunits progress progressr promises purrr quadprog R6 rappdirs RColorBrewer Rcpp RcppTOML readr reticulate rlang rprojroot sass scales shiny slider sourcetools stringi stringr sys tibble tidyr tidyselect timechange tsibble tzdb urca utf8 vctrs viridisLite vroom warp withr xtable yaml

Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Extract ARIMA parameters	extract_arima_params
Function to launch FOCUS Explorer shiny app	focus_explorer
'focustools' package	focustools
Format forecast for COVID-19 Forecast Hub submission entry	format_for_submission
Check Monday	is_monday
Make 'tsibble'	make_tsibble
Visualize forecast output	plot_forecast
Retrieve data	get_cases get_deaths retrieve
Reshape data for submission summary	spread_value
Summarize submission	submission_summary
Get Monday	this_monday
Helper used in 'ts_forecast()' to get cumulative forecast from incident	ts_cumulative_forecast
Wrapper to fit time series models	ts_fit
Generate time series forecasts including quantile estimates	ts_forecast
Helper to generate the estimate of incident cases from an icases forecast object	ts_futurecases
Check for valid quantile csv file input	validate_forecast