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Impute numeric data using a rolling window statistic

Source: R/impute_roll.R
step_impute_roll.Rd

step_impute_roll() creates a specification of a recipe step that will substitute missing values of numeric variables by the measure of location (e.g. median) within a moving window.

Usage

step_impute_roll(
  recipe,
  ...,
  role = NA,
  trained = FALSE,
  columns = NULL,
  statistic = median,
  window = 5,
  skip = FALSE,
  id = rand_id("impute_roll")
)

Arguments

recipe

A recipe object. The step will be added to the sequence of operations for this recipe.

...

One or more selector functions to choose variables to be imputed; these columns must be non-integer numerics (i.e., double precision). See selections() for more details.

role

Not used by this step since no new variables are created.

trained

A logical to indicate if the quantities for preprocessing have been estimated.

columns

A character string of the selected variable names. This field is a placeholder and will be populated once prep() is used.

statistic

A function with a single argument for the data to compute the imputed value. Only complete values will be passed to the function and it should return a double precision value.

window

The size of the window around a point to be imputed. Should be an odd integer greater than one. See Details below for a discussion of points at the ends of the series.

skip

A logical. Should the step be skipped when the recipe is baked by bake()? While all operations are baked when prep() is run, some operations may not be able to be conducted on new data (e.g. processing the outcome variable(s)). Care should be taken when using skip = TRUE as it may affect the computations for subsequent operations.

id

A character string that is unique to this step to identify it.

Value

An updated version of recipe with the new step added to the sequence of any existing operations.

Details

On the tails, the window is shifted towards the ends. For example, for a 5-point window, the windows for the first four points are 1:5, 1:5, 1:5, and then 2:6.

When missing data are in the window, they are not passed to the function. If all of the data in the window are missing, a missing value is returned.

The statistics are calculated on the training set values before imputation. This means that if previous data within the window are missing, their imputed values are not included in the window data used for imputation. In other words, each imputation does not know anything about previous imputations in the series prior to the current point.

As of recipes 0.1.16, this function name changed from step_rollimpute() to step_impute_roll().

Tidying

When you tidy() this step, a tibble is returned with columns terms, window , and id:

terms

character, the selectors or variables selected

window

integer, window size

id

character, id of this step

Tuning Parameters

This step has 2 tuning parameters:

  • statistic: Rolling Summary Statistic (type: character, default: median)

  • window: Window Size (type: integer, default: 5)

Case weights

The underlying operation does not allow for case weights.

See also

Other imputation steps: step_impute_bag(), step_impute_knn(), step_impute_linear(), step_impute_lower(), step_impute_mean(), step_impute_median(), step_impute_mode()

Other row operation steps: step_arrange(), step_filter(), step_lag(), step_naomit(), step_sample(), step_shuffle(), step_slice()

Examples

library(lubridate)

set.seed(145)
example_data <-
  data.frame(
    day = ymd("2012-06-07") + days(1:12),
    x1 = round(runif(12), 2),
    x2 = round(runif(12), 2),
    x3 = round(runif(12), 2)
  )
example_data$x1[c(1, 5, 6)] <- NA
example_data$x2[c(1:4, 10)] <- NA

library(recipes)
seven_pt <- recipe(~., data = example_data) %>%
  update_role(day, new_role = "time_index") %>%
  step_impute_roll(all_numeric_predictors(), window = 7) %>%
  prep(training = example_data)

# The training set:
bake(seven_pt, new_data = NULL)
#> # A tibble: 12 × 4
#>    day           x1    x2    x3
#>    <date>     <dbl> <dbl> <dbl>
#>  1 2012-06-08  0.89 0.79   0.58
#>  2 2012-06-09  0.53 0.79   0.45
#>  3 2012-06-10  0.86 0.79   0.67
#>  4 2012-06-11  0.92 0.79   0.05
#>  5 2012-06-12  0.86 0.88   0.27
#>  6 2012-06-13  0.86 0.6    0.13
#>  7 2012-06-14  0.97 0.79   0.67
#>  8 2012-06-15  0.85 0.27   0.16
#>  9 2012-06-16  0.86 0.11   0.36
#> 10 2012-06-17  0.96 0.435  0.09
#> 11 2012-06-18  0.91 0.16   0.76
#> 12 2012-06-19  0.07 0.86   0.74