as.ExpressionSet: Convert objects into ExpressionSets or MSnSets.

In readat: Functionality to Read and Manipulate SomaLogic ADAT files

Description

Converts objects into ExpressionSet or MSnSet instances.

Usage

as.ExpressionSet(x, log2Transform = TRUE, ...)

## S3 method for class 'WideSomaLogicData'
as.ExpressionSet(x, log2Transform = TRUE, ...)

soma2eset(somaObj, log2Transform = TRUE)

## S3 method for class 'WideSomaLogicData'
as.MSnSet(x, log2Transform = FALSE, ...)

as.MSnSet(x, log2Transform = FALSE, ...)

Arguments

x	An object to transform. Currently only WideSomaLogicData objects are supported.
log2Transform	whether to log2 transform intensities or not
...	Passed between methods.
somaObj	A WideSomaLogicData object to transform.

Value

ExpressionSet or MSnSet object

Author(s)

Aditya Bhagwat

Examples

somaFile <- extractSampleData()
wideSomaData <- readAdat(somaFile)
as.ExpressionSet(wideSomaData)
if(requireNamespace("MSnbase"))
{
  as.MSnSet(wideSomaData)
}

unlink(somaFile)

readat documentation built on Oct. 31, 2019, 8:19 a.m.