entitybuild2: Function to calculate test statistic for microarray data

In MAMA: Meta-Analysis of MicroArray

Description

Calculates test statistic for microarray data

Usage

entitybuild2(expr.mat, ALLtype = NULL, type, dataset = NULL, minSampleNum = 3, method = "t", random = FALSE)

Arguments

expr.mat	Expression matrix, with rows corresponding to genes and columns to samples
ALLtype	Vector of class labels, must be factor
type	Levels of class labels
dataset	Name of the dataset
minSampleNum	Minimal number of samples required for test statistic
method	Type of test as in mt.teststat (one of fc, t, z)
random	Logical, if TRUE samples are assinged to groups randomly

Value

Vector of test statistics.

Author(s)

Code provided by Xinan Yang <[e-mail]> has been modified by Ivana Ihnatova

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

data(Singhdata)
group<-as.factor(Singhdata$classes[[1]])
entitybuild2(Singhdata$esets[[1]], ALLtype=group, type=levels(group))

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