draw_recept_dom: Add receptor domains to ggplot2 object.

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

Add receptor domains to ggplot2 object.

Description

draw_recept_dom adds receptor 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_recept_dom(p, data = data, alpha = 1.0, label_domains = FALSE, label_size = 4,
         show.legend = TRUE)

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'. Uses TOPO_DOM and TRANSMEM type to plot these parts of receptors
alpha	Transparency of the rectangles representing the receptor domains.
label_domains	Option to label receptor domains or not.
label_size	Size of the text used for labels.
show.legend	Option to include legend in this layer

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.
# we like to draw receptors vertically so flip using ggplot2 functions
# scale_x_reverse and coord_flip
data("tnfs_data")
p <- draw_canvas(tnfs_data)
p <- draw_chains(p, tnfs_data, label_size = 1.25)
draw_recept_dom(p, tnfs_data) + ggplot2::scale_x_reverse() +
ggplot2::coord_flip()

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