EdgeObject-class: EdgeObject argumenting DGEList by including designContrast...

In bedapub/ribiosNGS: Utilities for next-generation sequencing data analysis in ribios

EdgeObject argumenting DGEList by including designContrast information

Description

EdgeObject argumenting DGEList by including designContrast information

Usage

## S4 method for signature 'matrix,DesignContrast'
EdgeObject(
  object,
  designContrast,
  fData = NULL,
  pData = NULL,
  remove.zeros = FALSE
)

## S4 method for signature 'FeatAnnoExprs,DesignContrast'
EdgeObject(object, designContrast, pData = NULL, remove.zeros = FALSE)

## S4 method for signature 'DGEList,DesignContrast'
EdgeObject(object, designContrast)

Arguments

object	A DGEList object
designContrast	A DesignContrast object
fData	A data.frame containing annotation information for genes
pData	A data.frame containing annotation information for samples
remove.zeros	Logical, whether to remove rows that have 0 total count

Methods (by generic)

• EdgeObject(object = matrix, designContrast = DesignContrast): The method for matrix as input

• EdgeObject(object = FeatAnnoExprs, designContrast = DesignContrast): The method for FeatAnnoExprs as input

• EdgeObject(object = DGEList, designContrast = DesignContrast): The method for DGEList as input

Slots

dgeList

A DGEList object

designContrast

A designContrast object

bedapub/ribiosNGS documentation built on Feb. 10, 2025, 12:34 a.m.