Get the Structures, Alignments, or Aglycons of Known Motifs

Given a character vector of motifs names in GlycoMotif GlyGen Collection, these functions return the structures, alignments, or aglycons of the motifs.

Usage

get_motif_structure(name)

get_motif_alignment(name)

get_motif_aglycon(name)

Arguments

name

A character vector of the motif name.

Value

get_motif_structure() returns a glycan_graph when name is a character scalar, and a list of glycan_graph when name is a character vector. get_motif_alignment() returns a character vector of motif alignments. get_motif_aglycon() returns a character vector of motif aglycons. For all three functions, if name has length greater than 1, the return value is named with the motif names.

See also

available_motifs(), is_known_motif()

Examples

get_motif_structure("N-Glycan core basic")
#> <glycan_structure[1]>
#> [1] Man(a1-3)[Man(a1-6)]Man(b1-4)GlcNAc(b1-4)GlcNAc(?1-
#> # Unique structures: 1
get_motif_alignment("N-Glycan core basic")
#> [1] "core"
get_motif_aglycon("N-Glycan core basic")
#> [1] "Asn"

get_motif_structure(c("O-Glycan core 1", "O-Glycan core 2"))
#> <glycan_structure[2]>
#> [1] Gal(b1-3)GalNAc(a1-
#> [2] Gal(b1-3)[GlcNAc(b1-6)]GalNAc(a1-
#> # Unique structures: 2
get_motif_alignment(c("O-Glycan core 1", "O-Glycan core 2"))
#> O-Glycan core 1 O-Glycan core 2 
#>          "core"          "core" 
get_motif_aglycon(c("O-Glycan core 1", "O-Glycan core 2"))
#> O-Glycan core 1 O-Glycan core 2 
#>       "Ser/Thr"       "Ser/Thr"