hist.FDX: Histogram of Raw P-Values

In FDX: False Discovery Exceedance Controlling Multiple Testing Procedures

Histogram of Raw P-Values

Description

Computes a histogram of the raw p-values of a FDX object.

Usage

## S3 method for class 'FDX'
hist(x, breaks = "FD", mode = c("raw", "selected", "weighted"), ...)

Arguments

x	object of class FDX.
breaks	as in graphics::hist(); here, the Friedman-Diaconis algorithm ("FD") is used as default.
mode	single character string specifying for which $p$-values the histogram is to be generated; must be one of "raw", "selected" or "weighted".
...	further arguments to graphics::hist() or graphics::plot.histogram(), respectively.

Details

If x does not contain results of a weighting or selection approach, a warning is issued and a histogram of the raw p-values is drawn.

Value

An object of class histogram.

Examples

X1 <- c(4, 2, 2, 14, 6, 9, 4, 0, 1)
X2 <- c(0, 0, 1, 3, 2, 1, 2, 2, 2)
N1 <- rep(148, 9)
N2 <- rep(132, 9)
Y1 <- N1 - X1
Y2 <- N2 - X2
df <- data.frame(X1, Y1, X2, Y2)
df

# Construction of the p-values and their supports with Fisher's exact test
library(DiscreteTests)  # for Fisher's exact test
test.results <- fisher_test_pv(df)
raw.pvalues <- test.results$get_pvalues()
pCDFlist <- test.results$get_pvalue_supports()

# DGR
DGR <- DGR(raw.pvalues, pCDFlist)
# histogram of raw p-values
hist(DGR)

# arithmetic-weighted GR (using 1 - raw.pvalues as weights)
wGR <- wGR.AM(raw.pvalues, 1 - raw.pvalues)
# histogram of raw p-values
hist(wGR)
# histogram of weighted p-values
hist(wGR, mode = "weighted")

FDX documentation built on April 4, 2025, 4:08 a.m.