meanEqualityTests.compareTwoTests: Compare the feature lists called significant by two tests...

In jvanheld/stats4bioinfo: Utilities for the book "Statistics for bioinformatics"

Description

Compare the feature lists called significant by two tests (e.g. Welch versus Wilcoxon) from an object returned by meanEqualityTest(), and plot the result.

Usage

meanEqualityTests.compareTwoTests(mnEqlT.result, test1, test2,
  signif.score = "fdr", alpha = 0.05, ...)

Arguments

mnEqlT.result	A result of stats4bioinfo::meanEqualityTests()
test1	First test
test2	Second test
signif.score	Score on which the alpha threshold should be applied (Supported: fdr, p.value, e.value)
alpha	Significance threshold (will be applied on corrected p-values)
...	Additional parameters are passed to plotPvalCompa()

Details

First version: 2015-03 Last modification: 2015-03

Author(s)

Jacques van Helden ([e-mail])

Examples

## We forward to meanEqualityTests() for examples of utilization
example(meanEqualityTests)

## Compare e-values between Welch and Wilcoxon tests
welch.vs.wilcoxon.e.value <- meanEqualityTests.compareTwoTests(diff.results,
                                               test1="welch",
                                               test2="wilcoxon",
                                               signif.score="e.value",
                                               plot.cex=0.5,legend.cex=0.8)

## Compare FDR between Welch and Wilcoxon tests, draw a grayscal plot
welch.vs.wilcoxon.fdr <- meanEqualityTests.compareTwoTests(diff.results,
                                               test1="welch",
                                               test2="wilcoxon",
                                               alpha=0.01,
                                               signif.score="fdr",
                                               plot.colors=FALSE,
                                               plot.cex=0.5,legend.cex=0.8)

jvanheld/stats4bioinfo documentation built on May 20, 2019, 5:16 a.m.