Plot enriched gene sets

plotEnrichedGeneSets(object, ...)

# S4 method for FGSEAList
plotEnrichedGeneSets(object, collection, n = 10L,
  headerLevel = 3L, theme = acid_theme_light())

Arguments

object

Object.

collection

character(1). Gene set collection name. Typically refers to h, c1-c7 collections from MSigDb. Can obtain using collectionNames() on FGSEAList object.

n

integer(1). Number of significant processes to include. Bidirectional; will include n up- and down-regulated processes.

headerLevel

integer(1). Markdown header level.

theme

theme/gg. ggplot2 theme.

...

Additional arguments.

Value

ggplot.

See also

Examples

data(gsea) plotEnrichedGeneSets(gsea, collection = "h", n = 1L)
#> #> #> ### dmso_r1881_vs_etoh {.tabset} #> #> #> #> #### HALLMARK_E2F_TARGETS #>
#> #> #> #### HALLMARK_MYOGENESIS #>