draw_domains: Add protein domains to ggplot2 object.

In brennanpincardiff/drawProteins: Package to Draw Protein Schematics from Uniprot API output

Add protein domains to ggplot2 object.

Description

draw_domains adds domains to the ggplot2 object created by draw_chains. It uses the data object. The ggplot2 function geom_rect is used to draw each of the domain chains proportional to their number of amino acids (length).

Usage

draw_domains(p,
         data = data,
         label_domains = TRUE,
         label_size = 4,
         alpha = 1.0,
         show.legend = TRUE,
         type = "DOMAIN")

Arguments

p	ggplot2 object ideally created with draw_canvas.
data	Dataframe of one or more rows with the following column names: 'type', 'description', 'begin', 'end', 'length', 'accession', 'entryName', 'taxid', 'order'. Must contain a minimum of one "CHAIN" as data$type.
label_domains	Option to label domains or not.
label_size	Size of the text used for labels.
alpha	Transparency of the rectangles representing the domains.
show.legend	Option to include legend in this layer
type	Can change to show other protein features

Value

A ggplot2 object either in the plot window or as an object with an additional geom_rect layer.

Examples

# combines with draw_chains to plot chains and domains.
data("five_rel_data")
p <- draw_canvas(five_rel_data)
p <- draw_chains(p, five_rel_data, label_size = 1.25)
draw_domains(p, five_rel_data)

brennanpincardiff/drawProteins documentation built on March 8, 2024, 8:15 a.m.