wdm

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R interface to the wdm C++ library, which provides efficient implementations of weighted dependence measures and related independence tests:

  • Pearsons’s rho
  • Spearmans’s rho
  • Kendall’s tau
  • Blomqvist’s beta
  • Hoeffding’s D

All measures are computed in O(n log n) time, where n is the number of observations.

For a detailed description of the functionality, see the API documentation.

Installation

  • the stable release from CRAN:
  • the development version from GitHub with:
# install.packages("devtools")
install_submodule_git <- function(x, ...) {
  install_dir <- tempfile()
  system(paste("git clone --recursive", shQuote(x), shQuote(install_dir)))
  devtools::install(install_dir, ...)
}
install_submodule_git("https://github.com/tnagler/wdm-r")

Cloning

This repo contains wdm as a submodule. For a full clone use

git clone --recurse-submodules <repo-address>

Examples

Dependence between two vectors 
x <- rnorm(100)
y <- rpois(100, 1)  # all but Hoeffding's D can handle ties
w <- runif(100)
wdm(x, y, method = "kendall")               # unweighted
#> [1] -0.03093257
wdm(x, y, method = "kendall", weights = w)  # weighted
#> [1] 0.04835766
Dependence in a matrix 
x <- matrix(rnorm(100 * 3), 100, 3)
wdm(x, method = "spearman")               # unweighted
#>             [,1]      [,2]        [,3]
#> [1,]  1.00000000 0.2194659 -0.05435344
#> [2,]  0.21946595 1.0000000  0.11401140
#> [3,] -0.05435344 0.1140114  1.00000000
wdm(x, method = "spearman", weights = w)  # weighted
#>            [,1]      [,2]       [,3]
#> [1,]  1.0000000 0.2575236 -0.1689466
#> [2,]  0.2575236 1.0000000  0.1197442
#> [3,] -0.1689466 0.1197442  1.0000000
Independence test 
x <- rnorm(100)
y <- rpois(100, 1)  # all but Hoeffding's D can handle ties
w <- runif(100)
indep_test(x, y, method = "kendall")               # unweighted
#>    estimate statistic   p_value n_eff  method alternative
#> 1 0.1278922  1.532215 0.1254693   100 kendall   two-sided
indep_test(x, y, method = "kendall", weights = w)  # weighted
#>    estimate statistic    p_value   n_eff  method alternative
#> 1 0.1704296  1.779486 0.07516007 79.6939 kendall   two-sided