gcap.plotDistribution: Draw Gene Amplicon Distribution By User Specified Class

In ShixiangWang/gcaputils: Utils for Package 'gcap'

Draw Gene Amplicon Distribution By User Specified Class

Description

Draw Gene Amplicon Distribution By User Specified Class

Usage

gcap.plotDistribution(
  fCNA,
  x = NULL,
  x_size = 8,
  set_order = TRUE,
  set_label = TRUE,
  fill = TRUE,
  palette = c("#CCCCCC", "#0066CC", "#FFCCCC", "#CC0033"),
  plot = TRUE,
  by_gene = FALSE,
  genelist = NULL,
  bar_width = 0.9,
  ...
)

Arguments

fCNA	a fCNA object or a data.frame with at least 3 columns "sample", "class" and "by".
x	a column name in fCNA$sample_summary.
x_size	font size of x axis text.
set_order	set order for by.
set_label	set labels to add sample count for by.
fill	if TRUE, show the percentage instead of count.
palette	color palette.
plot	if FALSE, return data instead of plot.
by_gene	sow distribution for genes.
genelist	only listed gene will be shown.
bar_width	set the width of bar, when it is 1, the border can be removed.
...	other parameters passing to ggplot2::geom_bar.

Value

a ggplot object.

Examples

set.seed(1234)
data <- data.frame(
  sample = sample(LETTERS[1:10], 100, replace = TRUE),
  class = sample(c("nofocal", "noncircular", "circular"), 100, replace = TRUE),
  by = sample(1:4, 100, replace = TRUE)
)
p <- gcap.plotDistribution(data)
p

ShixiangWang/gcaputils documentation built on Feb. 14, 2023, 5:58 a.m.