draw_repeat: Add protein repeats sites to ggplot2 object.

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

Add protein repeats sites to ggplot2 object.

Description

draw_repeat adds protein repeats from Uniprot to ggplot2 object created by draw_canvas and draw_chains. It uses the data object. The ggplot2 function geom_rect is used to draw each of the motifs proportional to their number of amino acids (length).

Usage

draw_repeat(p, data = data, label_size = 2, outline = "dimgrey",
            fill = "dimgrey", alpha = 1.0,
            label_repeats = TRUE, 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'. Must contain a minimum of one "CHAIN" as data$type.
label_size	Size of text used for labels of protein repeats.
outline	Colour of the outline of each repeat.
fill	Colour of the fill of each repeat.
alpha	Transparency of the rectangles representing the repeats.
label_repeats	Option to label repeats or not.
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 repeats.
data("five_rel_data")
p <- draw_canvas(five_rel_data)
p <- draw_chains(p, five_rel_data, label_size = 1.25)
draw_repeat(p, five_rel_data)

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