enrichBar: enrich bar plot
In xiayh17/RNAseqStat2: A Pipeline to Process RNAseq Data

View source: R/Visualization_enrichBar.R

enrichBar

R Documentation

enrich bar plot

Description

enrich bar plot

Usage

enrichBar(
  enrichResult,
  top = 10,
  group = "ONTOLOGY",
  space = 0.9,
  order_by = "pvalue",
  FDR = "qvalue",
  bar = "logP",
  bar_size = 2,
  point = "gr",
  point_shape = 21,
  point_size = 2.5,
  point_color = c("#de2d26", "#fc9272", "#fee0d2"),
  bar_color = rev(RColorBrewer::brewer.pal(5, "GnBu")[3:5]),
  group_color = RColorBrewer::brewer.pal(3, "Dark2"),
  group_names = c("Biological Process", "Cellular Component", "Molecular Function"),
  group_color_name = c("BP", "CC", "MF"),
  group_title = "ONTOLOGY",
  bar_title = "Qvalue",
  point_title = "GeneRatio",
  x_title = "-log10(pvalue)",
  y_title = "Description",
  plot_title = NULL,
  legend_text_size = 12,
  FDR_color = c("#de2d26", "#fc9272", "#fee0d2")
)

Arguments

`enrichResult`	a `enrichResult`
`top`	number of top categories to show
`group`	which column used to split group
`space`	space for text
`order_by`	order by which column, default is pvalue
`FDR`	pvalue or qvalue
`bar`	which column to plot bar, default is 'logP'
`bar_size`	size of bar
`point`	which column to plot point, default is 'gr'
`point_shape`	shape of point
`point_size`	size of point
`point_color`	color of point
`bar_color`	color of bar
`group_color`	color of group
`group_names`	label of group
`group_color_name`	color label of group
`group_title`	title label of group
`bar_title`	title of bar
`point_title`	title of point
`x_title`	title of x axis
`y_title`	title of y axis
`plot_title`	title of point
`legend_text_size`	size of legend text
`FDR_color`	color of FDR