Draw a Symbol Nomenclature For Glycan (SNFG)

Usage

draw_cartoon(
  structure,
  ...,
  show_linkage = TRUE,
  orient = c("left", "right", "up", "down"),
  highlight = NULL,
  style = style_glydraw(),
  red_end = NULL
)

Arguments

structure: A glyrepr::glycan_structure() scalar, or a string of any glycan structure text nomenclatures supported by glyparse::auto_parse().
...: Ignored.
show_linkage: Show glycosidic linkage annotations or not. Default is TRUE. Substituent annotations are always shown.
orient: Direction in which the glycan extends from its reducing end: one of "left", "right", "up", or "down". Defaults to "left".
highlight: An integer vector specifying the node indices to highlight. This argument is applicable only when structure is a glyrepr::glycan_structure(). Note that for a glyrepr::glycan_structure(), the node indices correspond exactly to the monosaccharides in its printed IUPAC nomenclature. For example, given glyrepr::as_glycan_structure("Gal(b1-3)[GlcNAc(b1-6)]GalNAc(a1-"), setting highlight = c(1, 3) will highlight the "Gal" and "GalNAc" nodes.
style: A style_glydraw() object that controls the cartoon's visual appearance.
red_end: Reducing-end annotation. NULL, the default, uses red_end from style. A non-NULL value overrides style$red_end. Ignored when style$red_end_length is 0. To annotate an amino-acid sequence, tag its single glycosite as, for example, "ABC<site>D</site>EFG".

Value

a ggplot2 object

Examples

draw_cartoon("Gal(b1-3)GalNAc(a1-")

draw_cartoon(
  "Gal(b1-3)GalNAc(a1-",
  style = style_glydraw(font_family = "serif")
)