ratio: Function to calculate the ratio of co-significant:...

In MAMA: Meta-Analysis of MicroArray

Description

Function to calculates the ratio of co-significant: expected/observed of strong and soft pattern matches

Usage

ratio(X.discret)

Arguments

X.discret

Matrix of 0 and 1. Rows correspond to genes, columns to studies (comparisons). 1 means that T statistic for the gene in the study was higher than selected threshold, otherwise 0 is used.

Details

Calculation is part of MAP-Matches methods. See References for details\

Value

A list which contains

n	Number of selected genes in each comparison
X.string	Patterns in observed in data
p.strong	Co-significance of strong pattern match, probability of observing strong pattern match in data?
p.soft	Co-significance of soft pattern match, probability of observing strong pattern match in data?

Author(s)

Codes provided by Xinan Yang <[e-mail]>

References

Yang, X., Bentink, S. a Spang, R. 2005, Detecting Common Gene Expression Patterns in Multiple Cancer Outcome Entities, Biomedical Microdevices, vol.7:3

Examples

A<-matrix(c(1,0,0,1,0,1,0,1,1,0,1,0,1,0,1), ncol=3, nrow=10)
ratio(A)

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