Skip to contents

Annotation venn chart

Source: R/annotation_venn_chart.R
annotation_venn_chart.Rd

Display a venn diagram of labels present in two annotation_sources.

Usage

annotation_venn_chart(
  factor_name,
  group_column = NULL,
  fill_colour = "white",
  line_colour = "black",
  labels = TRUE,
  legend = FALSE,
  ...
)

Arguments

factor_name

(character) The name of the column(s) in the annotation_source to generate a chart from. Up to seven columns can be compared for a single annotation_source.

group_column

(character, NULL) The name of the column in the annotation_source to create groups from in the Venn diagram. This parameter is ignored if there are multiple input tables, as each table is considered to be a group. This parameter is also ignored if more than one factor_name is provided, as each column is considered a group. The default is NULL.

fill_colour

(character) The line colour of the groups in a format compatible with ggplot e.g. "black" or "#000000". Special case ".group" sets the colour based on the group label and "none" will not fill the groups. The default is "white".

line_colour

(character) The line colour of the groups in a format compatible with ggplot e.g. "black" or "#000000". Special case ".group" sets the colour based on the group label, and ".none" will not display lines. The default is "black".

labels

(logical) Group labels. Allowed values are limited to the following:

  • "TRUE": Include group labels on the plot.

  • "FALSE": Do not inlude group labels on the plot.

The default is TRUE.

legend

(logical) Legend. Allowed values are limited to the following:

  • "TRUE": Include a legend in the plot.

  • "FALSE": Do not inlude a legend in the plot.

The default is FALSE.

...

Additional slots and values passed to struct_class.

Value

A annotation_venn_chart object. This object has no output slots. See chart_plot in the struct package to plot this chart object.

Details

This object makes use of functionality from the following packages:

  • RVenn

  • ggVennDiagram

Inheritance

A annotation_venn_chart object inherits the following struct classes:

[annotation_venn_chart] -> [chart] -> [struct_class]

References

Akyol T (2019). RVenn: Set Operations for Many Sets. R package version 1.1.0, https://CRAN.R-project.org/package=RVenn.

Gao C, Dusa A (2024). ggVennDiagram: A 'ggplot2' Implement of Venn Diagram. R package version 1.5.2, https://CRAN.R-project.org/package=ggVennDiagram.

Examples

M <- annotation_venn_chart(
        factor_name = "V1",
        line_colour = ".group",
        fill_colour = ".group",
        labels = FALSE,
        legend = FALSE,
        group_column = NULL)