convert_to_generic: Convert Monosaccharides to Generic Type

In glyrepr: Representation for Glycan Compositions and Structures

Convert Monosaccharides to Generic Type

Description

This function converts monosaccharide types of monosaccharide characters, glycan compositions, or glycan structures from concrete to generic type. This is a simplified version that only supports conversion from "concrete" to "generic" monosaccharides.

Usage

convert_to_generic(x)

## S3 method for class 'character'
convert_to_generic(x)

## S3 method for class 'glyrepr_structure'
convert_to_generic(x)

## S3 method for class 'igraph'
convert_to_generic(x)

## S3 method for class 'glyrepr_composition'
convert_to_generic(x)

Arguments

x	Either of these objects: A character of monosaccharide; A glycan composition vector ("glyrepr_composition" object); A glycan structure vector ("glyrepr_structure" object); A glycan igraph.

Value

A new object of the same class as x with monosaccharides converted to generic type. Graph input retains its vertex IDs and order.

Two types of monosaccharides

There are two types of monosaccharides:

• concrete: e.g. "Gal", "GlcNAc", "Glc", "Fuc", etc.

• generic: e.g. "Hex", "HexNAc", "HexA", "HexN", etc. Concrete furanose forms such as "Galf" and "GlcfNAc" convert to the same generic names as their ringless forms: "Hex" and "HexNAc", respectively. Explicit unusual configurations also convert to the same generic names as their natural counterparts. For example, "D-Fuc" and "D-Fucf" both convert to "dHex".

For the full list of monosaccharides, use available_monosaccharides().

Examples

# Convert character vectors
convert_to_generic(c("Gal", "GlcNAc", "Galf", "GlcfNAc"))

# Convert glycan compositions
comps <- glycan_composition(
  c(Gal = 5, GlcNAc = 2),
  c(Glc = 5, GalNAc = 4, Fuc = 1)
)
convert_to_generic(comps)

# Convert glycan structures
strucs <- c(n_glycan_core(), o_glycan_core_1())
convert_to_generic(strucs)

glyrepr documentation built on Sept. 22, 2026, 5:09 p.m.