geneSet: Gene set

In acidgenomics/pfgsea: Acid Genomics GSEA

Gene set

Description

Gene set

Usage

geneSet(object, ...)

## S4 method for signature 'FgseaList'
geneSet(object, collection, set)

Arguments

object	Object.
collection	character(1). Gene set collection name. Typically refers to h (hallmark), c1-c7 collections from MSigDb. Can obtain using collectionNames() on FgseaList object.
set	character(1). Gene set name, in a defined collection. For example, "HALLMARK_ADIPOGENESIS".
...	Additional arguments.

Value

character.

Note

Updated 2022-04-27.

Examples

data(fgsea)

## FgseaList ====
object <- fgsea
collection <- collectionNames(object)[[1L]]
set <- geneSetNames(object = object, collection = collection)[[1L]]
x <- geneSet(
    object = object,
    collection = collection,
    set = set
)
head(x)

acidgenomics/pfgsea documentation built on April 5, 2025, 9:18 a.m.