prelimScore: Function compute preliminary Similarity Score for Ordered...

In MAMA: Meta-Analysis of MicroArray

Description

Function computes preliminary Similarity Score as defined in Yang, 2005.

Usage

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

Arguments

ordering	Data frame, where columns refer to ordered gene list from one study
alpha	Numeric parameter used in weights exp(-alpha*n)
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

Similarity Score

Author(s)

Ivana Ihnatova

References

Yang, X., Bentink, S., Scheid, S. Spang, R., Similarities of ordered gene lists, 2005

Examples

 
genes<-paste("Gene", 1:100)
O<-cbind(sample(genes), sample(genes), sample(genes))
prelimScore(O, 0.1)

MAMA documentation built on Jan. 15, 2017, 3:05 p.m.