testSingleIndependence: Multiple independence tests between a reference group and...

In nuno-agostinho/psichomics: Graphical Interface for Alternative Splicing Quantification, Analysis and Visualisation

Multiple independence tests between a reference group and list of groups

Description

Uses Fisher's exact test.

Usage

testSingleIndependence(ref, groups, elements, pvalueAdjust = "BH")

Arguments

ref	Character: identifier of elements in reference group
groups	List of characters: list of groups where each element contains the identifiers of respective elements
elements	Character: all subject identifiers
pvalueAdjust	Character: method used to adjust p-values (see Details)

Details

The following methods for p-value adjustment are supported by using the respective string in the pvalueAdjust argument:

• none: Do not adjust p-values

• BH: Benjamini-Hochberg's method (false discovery rate)

• BY: Benjamini-Yekutieli's method (false discovery rate)

• bonferroni: Bonferroni correction (family-wise error rate)

• holm: Holm's method (family-wise error rate)

• hochberg: Hochberg's method (family-wise error rate)

• hommel: Hommel's method (family-wise error rate)

Value

Returns a groupIndependenceTest object: a list where each element is a list containing:

attribute	Name of the original groups compared against the reference groups
table	Contingency table used for testing
pvalue	Fisher's exact test's p-value

nuno-agostinho/psichomics documentation built on Feb. 11, 2024, 11:16 p.m.