R: Compute foldchange

foldchange {EMA}

R Documentation

Compute foldchange

Description

Caculates the foldchange for each genes.

Usage

foldchange(data, labels, unlog = TRUE)

Arguments

`data`	A matrix or a data frame of expression data. Each row of 'data' must correspond to a gene, and each column to a sample.
`labels`	A vector of length 'ncol(data)' containing the class labels of the samples. 'labels' should be a numeric vector 0 / 1. 0 specifying the samples of, e.g., the control group and 1 specifying, e.g., the case group.
`unlog`	'TRUE' if the data have to be unlog before the foldchange calculation.

Value

A vector of length 'n genes' with the foldchange for each genes.

Author(s)

EMA group

Examples

## load data
data(marty)

## Not run: 
## filtering data
marty <- expFilter(marty, threshold=3.5, graph=FALSE)

## End(Not run)

##Class label 0/1
marty.type.num <- ifelse(marty.type.cl=="Her2+",0,1)

## run folchange on 50 genes
fcOUT <- foldchange(marty[1:50,], marty.type.num)

[Package EMA version 1.3.2 Index]