BaseSet (version 0.9.0)

tidy: Convert GSEABase classes to a TidySet

Description

Convert GSEABase classes to a TidySet

Usage

tidy(object)
# S3 method for GeneSetCollection
tidy(object)
# S3 method for GeneSet
tidy(object)

Value

A TidySet object.

Arguments

object

A GeneSetCollection or a GeneSet derived object

Methods (by class)

• tidy(GeneSetCollection): Converts to a tidySet given a GeneSetCollection

• tidy(GeneSet): Converts to a tidySet given a GeneSet

Examples

# Needs GSEABase pacakge from Bioconductor
if (requireNamespace("GSEABase", quietly = TRUE)) {
    library("GSEABase")
    gs <- GeneSet()
    gs
    tidy(gs)
    fl <- system.file("extdata", "Broad.xml", package="GSEABase")
    gs2 <- getBroadSets(fl) # actually, a list of two gene sets
    TS <- tidy(gs2)
    dim(TS)
    sets(TS)
}