SeqMADE (version 1.0)

Factor: Construction of Variable Factors

Description

A function of constructing the Group variables, Direction variables, and the Count variables.

Usage

Factor(exprs, case, control)

Arguments

exprs

exprs is a data frame or matrix for two groups or conditions, with rows as variables (genes) and columns as samples.

case

case is the sample names in case groups.

control

control is the sample names in control groups.

Value

Count

The gene expression count values.

Group

The indicator variables represent that whether a gene belongs to case group or not.

Direction

The indicator variables represent that a gene is up-regulated or down-regulated.

Details

Two indicator variables Group and Direction corresponding to the different groups and the direction of the gene expression changes in the context of an RNA-Seq experiment, respectively. And in this part, 1 represents that a gene belongs to case group or up-regulated and 0 represents a gene belongs to control group or down-regulated. Besides, Count variables are the expression value in different samples for genes.

Examples

data(exprs)
case <- c("A1","A2","A3","A4","A5","A6","A7")
control <- c("B1","B2","B3","B4","B5","B6","B7")
factors <- Factor(exprs, case, control)