kmmd: Kernel Maximum Mean Discrepancy.

In elad663/kernlab: Kernel-Based Machine Learning Lab

Description

The Kernel Maximum Mean Discrepancy kmmd performs a non-parametric distribution test.

Usage

## S4 method for signature 'matrix'
kmmd(x, y, kernel="rbfdot",kpar="automatic", alpha = 0.05,
     asymptotic = FALSE, replace = TRUE, ntimes = 150, frac = 1, ...)

## S4 method for signature 'kernelMatrix'
kmmd(x, y, Kxy, alpha = 0.05,
     asymptotic = FALSE, replace = TRUE, ntimes = 100, frac = 1, ...)

## S4 method for signature 'list'
kmmd(x, y, kernel="stringdot", 
     kpar = list(type = "spectrum", length = 4), alpha = 0.05,
     asymptotic = FALSE, replace = TRUE, ntimes = 150, frac = 1, ...)

Arguments

x	data values, in a matrix, list, or kernelMatrix
y	data values, in a matrix, list, or kernelMatrix
Kxy	kernlMatrix between x and y values (only for the kernelMatrix interface)
kernel	the kernel function used in training and predicting. This parameter can be set to any function, of class kernel, which computes a dot product between two vector arguments. kernlab provides the most popular kernel functions which can be used by setting the kernel parameter to the following strings: rbfdot Radial Basis kernel function "Gaussian" polydot Polynomial kernel function vanilladot Linear kernel function tanhdot Hyperbolic tangent kernel function laplacedot Laplacian kernel function besseldot Bessel kernel function anovadot ANOVA RBF kernel function splinedot Spline kernel stringdot String kernel The kernel parameter can also be set to a user defined function of class kernel by passing the function name as an argument.
kpar	the list of hyper-parameters (kernel parameters). This is a list which contains the parameters to be used with the kernel function. Valid parameters for existing kernels are : sigma inverse kernel width for the Radial Basis kernel function "rbfdot" and the Laplacian kernel "laplacedot". degree, scale, offset for the Polynomial kernel "polydot" scale, offset for the Hyperbolic tangent kernel function "tanhdot" sigma, order, degree for the Bessel kernel "besseldot". sigma, degree for the ANOVA kernel "anovadot". lenght, lambda, normalized for the "stringdot" kernel where length is the length of the strings considered, lambda the decay factor and normalized a logical parameter determining if the kernel evaluations should be normalized. Hyper-parameters for user defined kernels can be passed through the kpar parameter as well. In the case of a Radial Basis kernel function (Gaussian) kpar can also be set to the string "automatic" which uses the heuristics in 'sigest' to calculate a good 'sigma' value for the Gaussian RBF or Laplace kernel, from the data. (default = "automatic").
alpha	the confidence level of the test (default: 0.05)
asymptotic	calculate the bounds asymptotically (suitable for smaller datasets) (default: FALSE)
replace	use replace when sampling for computing the asymptotic bounds (default : TRUE)
ntimes	number of times repeating the sampling procedure (default : 150)
frac	fraction of points to sample (frac : 1)
...	additional parameters.

Details

kmmd calculates the kernel maximum mean discrepancy for samples from two distributions and conducts a test as to whether the samples are from different distributions with level alpha.

Value

An S4 object of class kmmd containing the results of whether the H0 hypothesis is rejected or not. H0 being that the samples x and y come from the same distribution. The object contains the following slots :

H0	is H0 rejected (logical)
AsympH0	is H0 rejected according to the asymptotic bound (logical)
kernelf	the kernel function used.
mmdstats	the test statistics (vector of two)
Radbound	the Rademacher bound
Asymbound	the asymptotic bound

see kmmd-class for more details.

Author(s)

Alexandros Karatzoglou
[e-mail]

References

Gretton, A., K. Borgwardt, M. Rasch, B. Schoelkopf and A. Smola
A Kernel Method for the Two-Sample-Problem
Neural Information Processing Systems 2006, Vancouver
http://papers.nips.cc/paper/3110-a-kernel-method-for-the-two-sample-problem.pdf

See Also

ksvm

Examples

# create data
x <- matrix(runif(300),100)
y <- matrix(runif(300)+1,100)


mmdo <- kmmd(x, y)

mmdo

elad663/kernlab documentation built on May 7, 2019, 6:06 a.m.