initDGEobjDef: Instantiate a class DGEobjDef object.

In DGEobj: Differential Gene Expression (DGE) Analysis Results Data Object

Instantiate a class DGEobjDef object.

Description

Instantiate a class DGEobjDef object.

Usage

initDGEobjDef(levels, primaryAssayNames, types, uniqueTypes)

Arguments

levels	A character string or vector providing names for new levels
primaryAssayNames	A character string or vector, must be the same length as levels This argument supplies the primaryAssayNames for the corresponding levels.
types	A named character vector of new types where the values indicate the basetype for each named type (optional)
uniqueTypes	A name or vector of names to add to the uniqueType list (optional)

Value

A class DGEobjDef object suitable for use with initDGEobj

Examples

    # return the default DGEobj definition
    myDGEobjDef <- initDGEobjDef()

    # Optionally add some new types and levels for metabolomics data
     myDGEobjDef <- initDGEobjDef(levels = "metabolomics",
                                  primaryAssayNames = "intensity",
                                  types <- c(normalizedIntensity = "assay"))

    # When a new level is defined, the itemNames and types for the
    # rowData and colData are automatically established.  The
    # types argument is only needed to define downstream workflow objects.

DGEobj documentation built on May 16, 2022, 9:06 a.m.