ssvFeatureVenn: ggplot implementation of vennDiagram from limma package....

In seqsetvis: Set Based Visualizations for Next-Gen Sequencing Data

Description

ggplot implementation of vennDiagram from limma package. currently limited at 3 sets

Usage

ssvFeatureVenn(
  object,
  group_names = NULL,
  counts_txt_size = 5,
  counts_as_labels = FALSE,
  show_outside_count = FALSE,
  line_width = 3,
  circle_colors = NULL,
  fill_alpha = 0.3,
  line_alpha = 1,
  counts_color = NULL,
  n_points = 200,
  return_data = FALSE
)

Arguments

object	will be passed to ssvMakeMembTable for conversion to membership matrix
group_names	useful if names weren't provided or were lost in creating membership matrix
counts_txt_size	font size for count numbers
counts_as_labels	if TRUE, geom_label is used instead of geom_text. can be easier to read.
show_outside_count	if TRUE, items outside of all sets are counted outside. can be confusing.
line_width	uses size aesthetic to control line width of circles.
circle_colors	colors to use for circle line colors. Uses Dark2 set from RColorBrewer by default.
fill_alpha	alpha value to use for fill, defaults to .3.
line_alpha	numeric [0,1], alpha value for circle line
counts_color	character. single color to use for displaying counts
n_points	integer. number of points to approximate circle with. default is 200.
return_data	logical. If TRUE, return value is no longer ggplot and is instead the data used to generate that plot. Default is FALSE.

Value

ggplot venn diagram

Examples

ssvFeatureVenn(list(1:3, 2:6))
ssvFeatureVenn(CTCF_in_10a_overlaps_gr)
ssvFeatureVenn(S4Vectors::mcols(CTCF_in_10a_overlaps_gr)[,2:3])

seqsetvis documentation built on Nov. 8, 2020, 5:57 p.m.