TailRankTest-methods {TailRank}

Methods for TailRankTest objects

Description

This file describes the methods for an object of the class TailRankTest class.

Usage

## S4 method for signature 'TailRankTest'
summary(object, ...)
## S4 method for signature 'TailRankTest'
hist(x, overlay = FALSE,
  xlab = "tail-rank statistic", main = "", ...)
## S4 method for signature 'TailRankTest'
as.logical(x, ...)
## S4 method for signature 'TailRankTest'
getStatistic(object,...)

Arguments

x

A TailRankTest object

object

A TailRankTest object

overlay

An optional logical flag; defaults to FALSE.

xlab

A character string

main

A character string

...

Extra graphical parameters

Value

as.logical

Returns a logical vector. TRUE values pick out candidate biomarkers where the tail-rank test statistic exceeds the significance cutoff.

getStatistic

Returns the vector of tail-rank statistics contained in object.

hist

Invisibly returns the TailRankTest object.

summary

Invisibly returns the TailRankTest object.

Author(s)

Kevin R. Coombes <[e-mail]>

See Also

TailRankTest-class, TailRankTest, tailRankPower

Examples

# generate some fake data to use in the example
nr <- 40000
nc <- 110
fake.data <- matrix(rnorm(nr*nc), ncol=nc)
fake.class <- rep(c(TRUE, FALSE), c(40, 70))

# build an object
null.tr <-  TailRankTest(fake.data, fake.class)

# summarize the object
summary(null.tr)

# plot a histogram
hist(null.tr)
hist(null.tr, breaks=70, col='blue', overlay=TRUE)

# get a logical vector that can select those markers
# identified by the test
selector <- as.logical(null.tr)