multi.t.test: multi.t.test

In liukf10/TEST: Disease-Drived Differential Proteins and Proteome-Wide Co-Expression Network Associated Analysis

Description

multiple comparisons t test and choose significant proteins in proteomic data.

Usage

multi.t.test(data, group,
             sig = 0.05, Adj.sig = TRUE,
             grpAdj = "bonferroni",
             geneAdj = "fdr", ...)

Arguments

data	protein quantification data. column is sample. row is protein ID.
group	sample group information
sig	siginificant P value threshold. The default is 0.05.
Adj.sig	a logical value indicated that whether adjust P-values for multiple proteins comparisons in each two groups.
grpAdj	adjust multiple groups comparisions P-value in each two groups. The default is "bonferroni". it can seen in p.adjust.methods.
geneAdj	adjust multiple proteins comparisions P-value in each group. The default is "fdr". it can seen in p.adjust.methods.
...	Other arguments.

Author(s)

Kefu Liu

Examples

rm(list = ls())
library(DDPNA)
data(imputedData)
data <- imputedData
logD <- data$log2_value
rownames(logD) <- data$inf$ori.ID
group <- gsub("[0-9]+", "", colnames(logD))
Tsig_P <- multi.t.test(logD[1:100,], group, Adj.sig = FALSE, geneAdj = "fdr")

liukf10/TEST documentation built on May 20, 2019, 12:59 a.m.