parse_iupac_extended: Parse IUPAC-extended Structures

In glyparse: Parsing Glycan Structure Text Representations

Parse IUPAC-extended Structures

Description

Parse IUPAC-extended-style structure characters into a glyrepr::glycan_structure(). For more information about IUPAC-extended format, see \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1351/pac199668101919")}.

Usage

parse_iupac_extended(x, on_failure = "error", progress = FALSE)

Arguments

x	A character vector of IUPAC-extended strings. NA values are allowed and will be returned as NA structures.
on_failure	How to handle parsing failures. "error" aborts when a structure cannot be parsed. "na" returns NA at invalid positions.
progress	Whether to show a progress bar while parsing.

Details

The function accepts both a Unicode format (using the Greek letters alpha/beta and the arrow symbol ->) and a plain-text format (using the strings "alpha", "beta", and "->"). For example, both "\u03b2-D-Galp-(1\u21923)-\u03b1-D-GalpNAc-(1\u2192" and "beta-D-Galp-(1->3)-alpha-D-GalpNAc-(1->" are valid inputs.

Value

A glyrepr::glycan_structure() object.

See Also

parse_iupac_condensed(), parse_iupac_short()

Examples

iupac <- "\u03b2-D-Galp-(1\u21923)-\u03b1-D-GalpNAc-(1\u2192"
parse_iupac_extended(iupac)
parse_iupac_extended("beta-D-Galp-(1->3)-alpha-D-GalpNAc-(1->")

glyparse documentation built on Oct. 31, 2026, 9:06 a.m.