This package provides fast implementations of kernel estimators for the copula density. Due to its several plotting options it is particularly useful for the exploratory analysis of dependence structures. It can be further used for flexible nonparametric estimation of copula densities and resampling.
For detailed documentation, see the package vignette and the API documentation.
You can install:
the stable release on CRAN:
r
install.packages("kdecopula")
the latest development version:
r
devtools::install_github("tnagler/kdecopula")
The package provides the following functions:
kdecop
: Kernel estimation of a copula density. By default, estimation method and bandwidth are selected automatically. Returns an object of class kdecopula
.
dkdecop
: Evaluates the density of a kdecopula
object.
pkdecop
: Evaluates the distribution function of a kdecopula
object.
rkdecop
: Simulates synthetic data from a kdecopula
object.
Methods for class kdecopula
:
plot
, contour
: Surface and contour plots of the density estimate.
print
, summary
: Displays further information about the density estimate.
logLik
, AIC
, BIC
: Extracts fit statistics.
See the package documentation for more details on arguments and options.
Below, we demonstrate the main capabilities of the kdecopula
package. All user-level functions will be introduced with small examples.
Let's consider some variables of the Wiscon diagnostic breast cancer data included in this package. The data are transformed to pseudo-observations of the copula by the empirical probability integral/rank transform:
library(kdecopula)
data(wdbc) # load data
u <- apply(wdbc[, c(2, 8)], 2, rank) / (nrow(wdbc) + 1) # empirical PIT
plot(u) # scatter plot
We see that the data are slightly asymmetric w.r.t. both diagonals. Common parametric copula models are usually not flexible enough to reflect this. Let's see how a kernel estimator does.
We start by estimating the copula density with the kdecop
function. There is a number of options for the smoothing parameterization, estimation method and evaluation grid, but it is only required to provide a data-matrix.
kde.fit <- kdecop(u) # kernel estimation (bandwidth selected automatically)
summary(kde.fit)
#> Kernel copula density estimate (tau = 0.47)
#> ------------------------------
#> Variables: mean radius -- mean concavity
#> Observations: 569
#> Method: Transformation local likelihood, log-quadratic (nearest-neighbor, 'TLL2nn')
#> Bandwidth: alpha = 0.3519647
#> B = matrix(c(0.71, 0.7, -0.7, 0.71), 2, 2)
#> ---
#> logLik: 201.22 AIC: -367.97 cAIC: -366.83 BIC: -293.11
#> Effective number of parameters: 17.23
The output of the function kdecop
is an object of class kdecopula
that contains all information collected during the estimation process and summary statistics such as AIC or the effective number of parameters/degrees of freedom. These can also be accessed directly, e.g.
logLik(kde.fit)
#> 'log Lik.' 201.2196 (df=17.23373)
AIC(kde.fit)
#> [1] -367.9718
The most interesting part for most people is probably to make exploratory plots. The class kdecopula
has its own generic for plotting. In general, there are two possible types of plots: contour and surface (or perspective) plots. Additionally, the margins
argument allows to choose between plots of the original copula density and a meta-copula density with standard normal margins (default for type = contour
).
plot(kde.fit)
contour(kde.fit)
contour(kde.fit, margins = "unif")
You can also pass further arguments to the ...
argument to refine the aesthetics. The arguments are forwaded to
lattice::wireframe
or graphics::contour
, respectively.
plot(kde.fit,
zlim = c(0, 10), # z-axis limits
screen = list(x = -75, z = 45), # rotate screen
xlab = list(rot = 25), # labels can be rotated as well
ylab = list(label = "other label", rot = -25))
contour(kde.fit, col = terrain.colors(30), levels = seq(0, 0.3, by = 0.01))
kdecopula
objectThe density and cdf can be computed easily:
dkdecop(c(0.1, 0.2), kde.fit) # estimated copula density
#> [1] 1.691764
pkdecop(cbind(c(0.1, 0.9), c(0.1, 0.9)), kde.fit) # corresponding copula cdf
#> [1] 0.0327257 0.8505370
Furthermore, we can simulate synthetic data from the estimated density:
unew <- rkdecop(655, kde.fit)
plot(unew)
We see that the asymmetries observed in the data are adequately reflected by the estimated model.
Gijbels, I. and Mielniczuk, J. (1990). Estimating the density of a copula function. Communications in Statistics - Theory and Methods, 19(2):445-464.
Charpentier, A., Fermanian, J.-D., and Scaillet, O. (2006). The estimation of copulas: Theory and practice. In Rank, J., editor, Copulas: From theory to application in finance. Risk Books.
Geenens, G., Charpentier, A., and Paindaveine, D. (2014). Probit transformation for nonparametric kernel estimation of the copula density. arXiv:1404.4414 (stat.ME).
Nagler, T. (2014). Kernel Methods for Vine Copula Estimation. Master's Thesis, Technische Universität München
Wen, K. and Wu, X. (2015). Transformation-Kernel Estimation of the Copula Density, Working paper, preprint
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