plotEnrichedUpset: UpSet plot of directional enriched pathway intersections...

In steinbaugh/pfgsea: Acid Genomics GSEA

UpSet plot of directional enriched pathway intersections across contrasts

Description

UpSet plot of directional enriched pathway intersections across contrasts

Usage

plotEnrichedUpset(object, ...)

## S4 method for signature 'FgseaList'
plotEnrichedUpset(object, collection, direction = c("both", "up", "down"))

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.
direction	character(1). Include "both", "up", or "down" directions.
...	Additional arguments.

Value

Plot.

Note

Updated 2022-04-27.

Examples

data(fgsea)

## FgseaList ====
object <- fgsea
alphaThreshold(object) <- 0.9
collection <- collectionNames(object)[[1L]]
plotEnrichedUpset(
    object = object,
    collection = collection
)

steinbaugh/pfgsea documentation built on Oct. 17, 2023, 11:24 a.m.