pvalueIndAnalysis {DExMA}R Documentation

Calculation p-value for each gene and study

Description

This function uses t-test based on limma package in other to obtain the individual p-values for each study and gene

Usage

pvalueIndAnalysis(objectMA, missAllow = 0.3)

Arguments

objectMA

A list of list. Each list contains two elements. The first element is the expression matrix (genes in rows and sample in columns) and the second element is a vector of zeros and ones that represents the state of the diffenrent samples of the expression matrix. 0 represents one group (controls) and 1 represents the other group (cases). The result of the CreateObjectMA can be used too.

missAllow

a number that indicates the maximun proportion of missing values allowed in a sample. If the sample has more proportion of missing values the sample will be eliminated. In the other case the missing values will be imputed using the K-NN algorithm.

Value

A list formed by two elements:

Author(s)

Juan Antonio Villatoro Garcia, juanantoniovillatorogarcia@gmail.com

See Also

createObjectMA, metaAnalysisDE

Examples


data(DExMAExampleData)

pvalues <- pvalueIndAnalysis(objectMA=maObject, missAllow=0.3)
pvalues


[Package DExMA version 1.1.2 Index]