MAMA (version 2.2.1)

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

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)