IndOR

The aim of this package is to propose an implementation of the IndOR statistical method. Such a method aims at detecting SNPxSNP interaction by testing the independence between Odds-Ratio.

Installation

To install and load the package in R

library(devtools)
install_github("MathieuEmily/IndOR")
library(IndOR)

Function IndOR takes as input a matrix M, where M is a 9x2 table. The first column is made by counts for the nine genotypes in cases and the second column stores counts for controls.

Example:

If you observe the following counts in cases:

	AA	Aa	aa
BB	349	299	64
Bb	466	399	86
bb	155	133	49

and in controls:

	AA	Aa	aa
BB	353	302	65
Bb	470	403	86
bb	157	134	29

then in R you can build the following contingency table:

Cases <- c(349,299,64,466,399,86,155,133,49)
Controls <- c(353,302,65,470,403,56,157,134,29)
M <- cbind(Cases,Controls)

By typing

IndOR(M)

you can get the following response:

$statistic
     [,1]
[1,]  3.7

$p.value
     [,1]
[1,] 0.45