groupComp: Basic group comparison

In jordirofes/OmniOmics: Analysis of metabolomics (LC-MS) and transcriptomics (Microarray) data

Basic group comparison

Description

Compares different groups of features using log2(Fold-Change) and using the p-value from a t-test or wilcox test

Usage

groupComp(
  features,
  groupvar,
  elimlab = "none",
  test,
  adj.method = "fdr",
  paired,
  var.equal = FALSE
)

Arguments

features	An ExpressionSet or SummarizedExperiment object
groupvar	A numeric or string indicating the variable from the phenodata from which the comparisons will be made
elimlab	An optional string of a variable name in groupvar indicating a group that will not be used for comparisons.
test	A string indicating the test to be perform: t-test or wilcox
adj.method	A string indicating the p-value adjust methodology for multiple testing
paired	A boolean indicating if the t-test should be paired or not
var.equal	A boolean indicating if the variance in the t-test are considered equal or not

Value

Returns a list of comparison tables for each pair of groups

Author(s)

Jordi Rofes Herrera

jordirofes/OmniOmics documentation built on Nov. 22, 2022, 5:46 a.m.