01-workflow

COVID-19 app with Shiny

Workflow

Load required packages

suppressPackageStartupMessages({
library(forecast)
library(jsonlite)
library(ggplot2)
library(plotly)
})
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = ""
)

Source the functions

source("functions.R")

Get the table listing the regions/coutries and their slugified ID

r <- fromJSON("https://hub.analythium.io/covid-19/api/v1/regions")
r$slug

Pick an ID, get/process the data, fit/forecast an ETS model

pred <- "canada-combined" %>%
  get_data() %>%
  process_data(cases="confirmed", last="2021-05-01") %>%
  fit_model() %>%
  predict_model(window=30, level=95)

Inspect the forecast and prediction intervals

head(pred$prediction)
#>           Date PointForecast       Lo       Hi
#> 466 2021-05-02      7714.415 5832.609 9596.222
#> 467 2021-05-03      7675.600 5775.641 9575.559
#> 468 2021-05-04      7643.555 5709.822 9577.287
#> 469 2021-05-05      7617.098 5633.808 9600.388
#> 470 2021-05-06      7595.256 5548.122 9642.390
#> 471 2021-05-07      7577.224 5454.266 9700.182

Plot the time series and forecast

p <- plot_all(pred)

p

Turn the plot into a plotly widget

ggplotly(p)