GSAQ (version 1.0)

GeneSelect: Selection of informative geneset

Description

The function returns the informative geneset from the high dimensional gene expression data using a proper statistical technique.

Usage

GeneSelect(x, y, s, method)

Arguments

x

x is a N x m gene expression data matrix (must be data frame) and row names as gene names, where, N represents the number of genes in the whole gene space and m is number of samples.

y

y is a m by 1 vector representing the sample labels, is according to the different stress conditions for two class problem (must be 1: stress/-1: control)

s

s is a numeric constant representing the number of genes to be selected from the large pool of genes/ gene space.

method

method is a character string indicating which method for informative gene selection is to be used. One of method "t-score" (default), "F-score", "MRMR", "BootMRMR" can be abbreviated and used.

Value

Examples

data(rice_salt)
x=as.data.frame(rice_salt[-1,])
y=as.numeric(rice_salt[1,])
GeneSelect(x, y, s=50, method="t-score")$selectgenes