boot_t_test: Bootstrap t-Test

In boot.pval: Bootstrap p-Values

Bootstrap t-Test

Description

Performs one- and two-sample bootstrap t-tests and computes the corresponding bootstrap confidence interval.

Usage

boot_t_test(x, ...)

## Default S3 method:
boot_t_test(
  x,
  y = NULL,
  alternative = c("two.sided", "less", "greater"),
  mu = 0,
  paired = FALSE,
  var.equal = FALSE,
  conf.level = 0.95,
  R = 9999,
  type = "stud",
  ...
)

## S3 method for class 'formula'
boot_t_test(formula, data, subset, na.action, ...)

## S3 method for class 'data.frame'
boot_t_test(x, formula, ...)

## S3 method for class 'matrix'
boot_t_test(x, formula, ...)

Arguments

x	a (non-empty) numeric vector of data values.
...	Additional arguments passed to boot, such as parallel for parallel computations. See ?boot::boot for details.
y	an optional (non-empty) numeric vector of data values.
alternative	a character string specifying the alternative hypothesis, must be one of "two.sided" (default), "greater" or "less". You can specify just the initial letter.
mu	a number indicating the true value of the mean (or difference in means if you are performing a two sample test).
paired	a logical indicating whether you want a paired t-test.
var.equal	a logical variable indicating whether to treat the two variances as being equal. If TRUE then the pooled variance is used to estimate the variance otherwise the Welch (or Satterthwaite) approximation to the degrees of freedom is used.
conf.level	confidence level of the interval.
R	The number of bootstrap replicates. The default is 9999.
type	A vector of character strings representing the type of interval to base the test on. The value should be one of "norm", "basic", "bca", perc", and "stud" (the default).
formula	a formula of the form lhs ~ rhs where lhs is a numeric variable giving the data values and rhs either 1 for a one-sample or paired test or a factor with two levels giving the corresponding groups. If lhs is of class "Pair" and rhs is 1, a paired test is done, see Examples.
data	an optional matrix or data frame (or similar: see model.frame) containing the variables in the formula formula. By default the variables are taken from environment(formula).
subset	an optional vector specifying a subset of observations to be used.
na.action	a function which indicates what should happen when the data contain NAs.

Details

p-values can be computed by inverting the corresponding confidence intervals, as described in Section 14.2 of Thulin (2024) and Section 3.12 in Hall (1992). This function computes p-values for the t-test in this way. The approach relies on the fact that:

• the p-value of the two-sided test for the parameter theta is the smallest alpha such that theta is not contained in the corresponding 1-alpha confidence interval,

• for a test of the parameter theta with significance level alpha, the set of values of theta that aren't rejected by the two-sided test (when used as the null hypothesis) is a 1-alpha confidence interval for theta. Consequently, the p-value will be consistent with the confidence interval, in the sense that the null hypothesis is rejected if and only if the null parameter values is not contained in the confidence interval.

Value

A list with class "htest") containing the following components:

statistic	the value of the t-statistic.
R	the number of bootstrap replicates used.
p.value	the bootstrap p-value for the test.
conf.int	a bootstrap confidence interval for the mean appropriate to the specified alternative hypothesis.
estimate	the estimated mean or difference in means depending on whether it was a one-sample test or a two-sample test.
null.value	the specified hypothesized value of the mean or mean difference depending on whether it was a one-sample test or a two-sample test.
alternative	a character string describing the alternative hypothesis.
method	a character string indicating what type of t-test was performed.
data.name	a character string giving the name(s) of the data.

References

\insertRef

hall92boot.pval \insertRefthulin21boot.pval

See Also

boot_median_test() for bootstrap tests for medians, boot_summary() for bootstrap tests for coefficients of regression models.

Examples

# Generate example data:
# x is the variable of interest
# y is the grouping variable
example_data <- data.frame(x = rnorm(40), y = rep(c(1,2), 20))

# Two-sample (Welch) test:
boot_t_test(x ~ y, data = example_data, R = 999)

# Two-sample (Welch) test using the pipe:
example_data |> boot_t_test(x ~ y, R = 999)

# With a directed alternative hypothesis:
example_data |> boot_t_test(x ~ y, R = 999, alternative = "greater")

# One-sample test:
boot_t_test(example_data$x, R = 999)

# One-sample test using the pipe:
example_data |> boot_t_test(x ~ 1, R = 999)

# With a directed alternative hypothesis:
example_data |> boot_t_test(x ~ 1, R = 999, mu = 0.5, alternative = "less")

# Paired test:
boot_t_test(example_data$x[example_data$y==1],
            example_data$x[example_data$y==2],
            paired = TRUE, R = 999)

# Paired test using the pipe (after reshaping to wide format):
example_data$id <- rep(1:20, rep(2, 20))
example_data2 <- reshape(example_data, direction = "wide",
                         idvar = "id", timevar = "y")
example_data2 |> boot_t_test(Pair(x.1, x.2) ~ 1)

boot.pval documentation built on April 4, 2025, 2:15 a.m.