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Scatter plots for two imputed numeric variables

Source: R/plot_2vars.R
plot_2num.Rd

Plot observed values versus m sets of imputed values for two specified numeric variables using ggplot2.

Usage

plot_2num(
  imputation.list,
  var.x,
  var.y,
  original.data,
  true.data = NULL,
  color.pal = NULL,
  shape = FALSE
)

Arguments

imputation.list

A list of m imputed datasets returned by the mixgb imputer

var.x

A numeric variable on the x-axis

var.y

A numeric variable on the y-axis

original.data

The original data with missing data

true.data

The true data without missing values. This is generally unknown in practice. If the true data is known (e.g., in cases where it is generated by simulation), it can be specified in this argument. The output will then have an extra panel called MaskedTrue, which shows values originally observed but intentionally made missing.

color.pal

A vector of hex color codes for the observed and m sets of imputed values panels. The vector should be of length m+1. Default: NULL (use "gray40" for the observed panel, use ggplot2 default colors for other panels.)

shape

Whether to plot shapes for different types of missing values. By default, this is set to FALSE to speed up plotting. We only recommend using `shape = TRUE` for small datasets.

Value

Scatter plots for two numeric/integer variable

Examples

# obtain m multiply datasets
params <- list(max_depth = 3, subsample = 0.8, nthread = 2)
imputed.data <- mixgb(data = nhanes3, m = 3, xgb.params = params, nrounds = 30)

# plot the multiply imputed values for variables "BMPRECUM" versus "BMPHEAD"
plot_2num(
  imputation.list = imputed.data, var.x = "BMPHEAD", var.y = "BMPRECUM",
  original.data = nhanes3
)