as.ExpressionSet: Convert objects into ExpressionSets or MSnSets.
In graumannlab/readat: Functionality to Read and Manipulate SomaLogic ADAT files

Description Usage Arguments Value Author(s) Examples

Converts objects into ExpressionSet or MSnSet instances.

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, ...)

`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.

ExpressionSet or MSnSet object

Aditya Bhagwat

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

unlink(somaFile)
if (interactive()) {
    # Not testing, since this is a repeat of readAdat() examples
    somaFile <- extractSampleData()
    wideSomaData <- readAdat(somaFile)
    as.ExpressionSet(wideSomaData)
    unlink(somaFile)
}