enrichR (version 3.4)

plotEnrich: plotEnrich

Description

Visualise a Enrichr output as barplot

Usage

plotEnrich(
  df,
  showTerms = 20,
  numChar = 40,
  y = "Count",
  orderBy = "P.value",
  xlab = NULL,
  ylab = NULL,
  title = NULL
)

Value

A ggplot plot object

Arguments

df

(Required). A single data.frame from a list of Enrichr output.

showTerms

(Optional). Number of terms to show. Default is 20.

numChar

(Optional). A single integer. Default is 40. Indicates the number characters to keep in the term description.

y

(Optional). A character string. Default is "Count". Indicates the variable that should be mapped to the y-axis. It can be either "Count" or "Ratio". Results that includes background genes in the analysis can only show "Count".

orderBy

(Optional). A character string. Default is "P.value". Indicates how to order the Enrichr results before subsetting to keep top N terms. It can be one of these:

• "P.value"

• "Adjusted.P.value" (or "FDR")

• "Combined.Score" (or "Score")

xlab

(Optional). A character string. Default is NULL. Indicates the x-axis label.

ylab

(Optional). A character string. Default is NULL. Indicates the y-axis label.

title

(Optional). A character string. Default is NULL Indicates the main title for the graphic.

Author

I-Hsuan Lin

Details

Visualise Enrichr result from a selected gene-set library as barplot.

See Also

ggplot

Examples

# data(input) # Load example input genes
# dbs <- c("GO_Molecular_Function_2023", "GO_Cellular_Component_2023",
#          "GO_Biological_Process_2023")
# if (getOption("enrichR.live")) {
#   enriched <- enrichr(input, dbs)
#   print(head(enriched[[1]]))
#   # Plot top 20 terms from "GO_Biological_Process_2023" and ordered by P-value
#   plotEnrich(enriched[[3]], showTerms = 20, numChar = 50, y = "Count",
#              orderBy = "P.value")
# }