new_cem {CEMiTool}R Documentation

Create a CEMiTool object

Description

Create a CEMiTool object

Usage

new_cem(expr = data.frame(), sample_annot = data.frame(),
  sample_name_column = "SampleName", class_column = "Class")

Arguments

expr

Object of class data.frame with gene expression data

sample_annot

Object of data.frame containing the sample annotation. It should have at least two columns containing group Class and the Sample Name that should match with samples in expression file

sample_name_column

A string specifying the column to be used as sample identification. Default: "SampleName".

class_column

A string specifying the column to be used as a grouping factor for samples. Default: "Class"

Value

Object of class CEMiTool

Examples

# Create new CEMiTool object
cem <- new_cem()
# Create new CEMiTool object with expression and sample_annotation data
data(expr0)
data(sample_annot)
cem <- new_cem(expr0, sample_annot, "SampleName", "Class")
# Equivalent to a call to new()
cem2 <- new("CEMiTool", expression=expr0, sample_annotation=sample_annot)
identical(cem, cem2)

[Package CEMiTool version 1.4.2 Index]