wilcoxBatch: Automatic calculation of a Wilcoxon test for OMICS data
In AlexINSERM/Sci.ADS: Helpful functions regularly used in INSERM U1193

View source: R/wilcoxBatch.R

wilcoxBatch

R Documentation

Automatic calculation of a Wilcoxon test for OMICS data

Description

Automatic calculation of a Wilcoxon test for OMICS data

Usage

wilcoxBatch(df, groupVar, threshold = 5, method.Adj = "BH")

Arguments

`df`	dataframe (variable in columns, samples in rows)
`groupVar`	sample grouping column
`threshold`	threshold for significance (expressed as a percentage)
`method.Adj`	method used for multiple comparison adjustment ("holm", "hochberg", "hommel", "bonferroni", "BH", "BY", "fdr", "none")

Value

dataframe with significant variables

Examples

data(LIHC_pnas)
# subset of TCGA data from LIHC
LIHC_pnas <- subset(LIHC_pnas, iHCC != "iHCC3")
res<-wilcoxBatch(LIHC_pnas, iHCC, threshold=1) # 1% threshold

AlexINSERM/Sci.ADS documentation built on March 24, 2024, 11:26 p.m.