MAMA (version 2.1.0)

selectGenes: Function to select genes that account for Similarity score

Description

Genes that account for e.g 95% of Similarity score are returned.

Usage

selectGenes(ordering, alpha, percent, min.weight = 1e-05, two.sided = TRUE)

Arguments

ordering

Ordered gene lists as data.frame or matrix, each column refer to one study

alpha

Selected alpha parameter for Similarity score

percent

Percentage (Numeric between 0 and 1) of the score

min.weight

minimal weight to be counted

two.sided

if TRUE both top and bottom of the ordering considered, if FALSE only top positions are considered

Value

• Vector of genes

Examples

genes<-paste("Gene", 1:1000)

O<-cbind(c(sample(genes[1:200]),sample(genes[201:1000])),
         c(sample(genes[1:200]),sample(genes[201:1000])),
         c(sample(genes[1:200]),sample(genes[201:1000])) 
)
alph<-computeAlpha(100,ngenes=1000)
selectGenes(O, alph, 0.95)