healthyR.ts

The goal of healthyR.ts is to provide a consistent verb framework for performing time series analysis and forecasting on both administrative and clinical hospital data.

Installation

You can install the released version of healthyR.ts from CRAN with:

install.packages("healthyR.ts")

And the development version from GitHub with:

# install.packages("devtools")
devtools::install_github("spsanderson/healthyR.ts")

Example

This is a basic example which shows you how to generate random walk data.

library(healthyR.ts)
library(ggplot2)

df <- ts_random_walk()

head(df)
#> # A tibble: 6 × 4
#>     run     x        y cum_y
#>   <dbl> <dbl>    <dbl> <dbl>
#> 1     1     1  0.0541  1054.
#> 2     1     2 -0.143    904.
#> 3     1     3 -0.0285   878.
#> 4     1     4  0.245   1093.
#> 5     1     5  0.0658  1165.
#> 6     1     6  0.00266 1168.

Now that the data has been generated, lets take a look at it.

df %>%
   ggplot(
       mapping = aes(
           x = x
           , y = cum_y
           , color = factor(run)
           , group = factor(run)
        )
    ) +
    geom_line(alpha = 0.8) +
    ts_random_walk_ggplot_layers(df)

That is still pretty noisy, so lets see this in a different way. Lets clear this up a bit to make it easier to see the full range of the possible volatility of the random walks.

library(dplyr)
library(ggplot2)

df %>%
    group_by(x) %>%
    summarise(
        min_y = min(cum_y),
        max_y = max(cum_y)
    ) %>%
    ggplot(
        aes(x = x)
    ) +
    geom_line(aes(y = max_y), color = "steelblue") +
    geom_line(aes(y = min_y), color = "firebrick") +
    geom_ribbon(aes(ymin = min_y, ymax = max_y), alpha = 0.2) +
    ts_random_walk_ggplot_layers(df)

This package comes with a wide variety of functions from Data Generators to Statistics functions. The function ts_random_walk() in the above example is a Data Generator.

Let’s take a look at a plotting function.

data_tbl <- data.frame(
  date_col = seq.Date(
    from = as.Date("2020-01-01"),
    to   = as.Date("2022-06-01"),
    length.out = 365*2 + 180
    ),
  value = rnorm(365*2+180, mean = 100)
)

ts_calendar_heatmap_plot(
  .data          = data_tbl
  , .date_col    = date_col
  , .value_col   = value
  , .interactive = FALSE
)

Time Series Clustering via Features:

data_tbl <- ts_to_tbl(AirPassengers) %>%
  mutate(group_id = rep(1:12, 12))

output <- ts_feature_cluster(
  .data = data_tbl,
  .date_col = date_col,
  .value_col = value,
  group_id,
  .features = c("acf_features","entropy"),
  .scale = TRUE,
  .prefix = "ts_",
  .centers = 3
)

ts_feature_cluster_plot(
  .data = output,
  .date_col = date_col,
  .value_col = value,
  .center = 2,
  group_id
)

Time to/from Event Analysis

library(dplyr)
df <- ts_to_tbl(AirPassengers) %>% select(-index)

ts_time_event_analysis_tbl(
  .data = df,
  .horizon = 6,
  .date_col = date_col,
  .value_col = value,
  .direction = "both"
) %>%
  ts_event_analysis_plot()

ts_time_event_analysis_tbl(
  .data = df,
  .horizon = 6,
  .date_col = date_col,
  .value_col = value,
  .direction = "both"
) %>%
  ts_event_analysis_plot(.plot_type = "individual")

ARIMA Simulators

output <- ts_arima_simulator()
output$plots$static_plot

Automatic Workflows which can be thought of as Boiler Plate Time Series modeling. This is in it’s infancy in this package.

This is just a start of what is in this package!