Ball Statistics

Travis Build Status

Introduction

The fundamental problems for data mining and statistical analysis are:

Ball package provides solutions for these issues. Moreover, a variable screening (or feature screening) procedure is also implemented to tackle ultra high dimensional data. The core functions in Ball package are bd.test, bcov.test, and bcorsis.

These functions based on ball statistic have several advantages:

Particularly, for two-sample or K-sample problem, bd.test has been proved to cope well for imbalanced data, and bcov.test and bcorsis work well for detecting the relationship between complex responses and/or predictors, such as shape, compositional as well as censored data.

Installation

CRAN version

To install the Ball R package from CRAN, just run:

install.packages("Ball")

Github version

To install the development version from GitHub, run:

library(devtools)
install_github("Mamba413/Ball", build_vignettes = TRUE)

Windows user will need to install Rtools first.

Usage

Take iris dataset as an example to illustrate how to use bd.test and bcov.test to deal with the fundamental problems mentioned above.

bd.test

virginica <- iris[iris$Species == "virginica", "Sepal.Length"]
versicolor <- iris[iris$Species == "versicolor", "Sepal.Length"]
bd.test(virginica, versicolor)

In this example, bd.test examines the assumption that Sepal.Length distributions of versicolor and virginica are equal.

If the assumption invalid, the p-value of the bd.test will be under 0.05.

In this example, the result is:

    Nonparametric 2-Samples Ball Divergence Test

data:  virginica and versicolor 
number of observations = 100, group sizes: 50 50
replicates = 99
bd = 0.32912, p-value = 0.01
alternative hypothesis: distributions of samples are distinct

The R output shows that p-value is under 0.05. Consequently, we can conclude that the Sepal.Length distribution of versicolor and virginica are distinct.

bcov.test

sepal <- iris[, c("Sepal.Width", "Sepal.Length")]
petal <- iris[, c("Petal.Width", "Petal.Length")]
bcov.test(sepal, petal)

In this example, bcov.test investigates whether width or length of petal is associated with width and length of sepal. If the dependency really exists, the p-value of the bcov.test will be under 0.05.

In this example, the result is:

    Ball Covariance test of independence

data:  sepal and petal
number of observations = 150
replicates = 99, Weighted Ball Covariance = FALSE
bcov = 0.0081472, p-value = 0.01
alternative hypothesis: random variables are dependent

Therefore, the relationship between width and length of sepal and petal exists.

bcorsis

We generate a dataset and demonstrate the usage of bcorsis function as follow.

## simulate a ultra high dimensional dataset:
set.seed(1)
n <- 150
p <- 3000
x <- matrix(rnorm(n * p), nrow = n)
error <- rnorm(n)
y <- 3*x[, 1] + 5*(x[, 3])^2 + error

## BCor-SIS procedure:
res <- bcorsis(y = y, x = x)
head(res[["ix"]], n = 5)

In this example, the result is :

# [1]    3    1 1601   20  429

The bcorsis result shows that the first and the third variable are the two most important variables in 3000 explanatory variables which is consistent to the simulation settings.

If you find any bugs, or if you experience any crashes, please report to us. If you have any questions just ask, we won’t bite.

License

GPL-3